partis-bcr 1.0.11.post1.dev1__cp312-cp312-manylinux1_x86_64.whl → 1.0.11.post1.dev7__cp312-cp312-manylinux1_x86_64.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (655) hide show
  1. bin/partis +1 -1
  2. bin/partis-test.py +6 -0
  3. bin/partis.py +1 -1
  4. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/partis-test.py +6 -0
  5. {partis_bcr-1.0.11.post1.dev1.dist-info → partis_bcr-1.0.11.post1.dev7.dist-info}/METADATA +1 -1
  6. {partis_bcr-1.0.11.post1.dev1.dist-info → partis_bcr-1.0.11.post1.dev7.dist-info}/RECORD +655 -127
  7. python/recombinator.py +2 -0
  8. python/treegenerator.py +1 -1
  9. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/d_3p_del.csv +7 -0
  10. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/d_5p_del.csv +8 -0
  11. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/dj_insertion.csv +8 -0
  12. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/fv_insertion.csv +10 -0
  13. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/j_3p_del.csv +4 -0
  14. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/j_5p_del.csv +8 -0
  15. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/jf_insertion.csv +4 -0
  16. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/shm_indel_length.csv +8 -0
  17. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/v_3p_del.csv +4 -0
  18. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/v_5p_del.csv +4 -0
  19. test/new-results/annotate-new-simu-annotation-performance/hmm/boundaries/vd_insertion.csv +8 -0
  20. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/d_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  21. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/d_fraction_correct_vs_mute_freq.csv +28 -0
  22. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/d_gene.csv +5 -0
  23. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/j_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  24. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/j_fraction_correct_vs_mute_freq.csv +28 -0
  25. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/j_gene.csv +5 -0
  26. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/v_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  27. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/v_fraction_correct_vs_mute_freq.csv +28 -0
  28. test/new-results/annotate-new-simu-annotation-performance/hmm/gene-call/v_gene.csv +5 -0
  29. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/cdr3_hamming_to_true_naive.csv +7 -0
  30. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/cdr3_muted_bases.csv +7 -0
  31. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/d_hamming_to_true_naive.csv +5 -0
  32. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/d_muted_bases.csv +6 -0
  33. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/hamming_to_true_naive.csv +7 -0
  34. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/j_hamming_to_true_naive.csv +4 -0
  35. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/j_muted_bases.csv +5 -0
  36. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/mute_freqs.csv +28 -0
  37. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/muted_bases.csv +7 -0
  38. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/v_hamming_to_true_naive.csv +4 -0
  39. test/new-results/annotate-new-simu-annotation-performance/hmm/mutation/v_muted_bases.csv +4 -0
  40. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/d_3p_del.csv +8 -0
  41. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/d_5p_del.csv +6 -0
  42. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/dj_insertion.csv +7 -0
  43. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/fv_insertion.csv +4 -0
  44. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/j_3p_del.csv +4 -0
  45. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/j_5p_del.csv +9 -0
  46. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/jf_insertion.csv +4 -0
  47. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/shm_indel_length.csv +8 -0
  48. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/v_3p_del.csv +4 -0
  49. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/v_5p_del.csv +4 -0
  50. test/new-results/annotate-new-simu-annotation-performance/sw/boundaries/vd_insertion.csv +6 -0
  51. test/new-results/annotate-new-simu-annotation-performance/sw/gene-call/d_fraction_correct_vs_mute_freq.csv +28 -0
  52. test/new-results/annotate-new-simu-annotation-performance/sw/gene-call/d_gene.csv +5 -0
  53. test/new-results/annotate-new-simu-annotation-performance/sw/gene-call/j_fraction_correct_vs_mute_freq.csv +28 -0
  54. test/new-results/annotate-new-simu-annotation-performance/sw/gene-call/j_gene.csv +5 -0
  55. test/new-results/annotate-new-simu-annotation-performance/sw/gene-call/v_fraction_correct_vs_mute_freq.csv +28 -0
  56. test/new-results/annotate-new-simu-annotation-performance/sw/gene-call/v_gene.csv +5 -0
  57. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/cdr3_hamming_to_true_naive.csv +6 -0
  58. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/cdr3_muted_bases.csv +7 -0
  59. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/d_hamming_to_true_naive.csv +5 -0
  60. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/d_muted_bases.csv +5 -0
  61. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/hamming_to_true_naive.csv +6 -0
  62. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/j_hamming_to_true_naive.csv +4 -0
  63. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/j_muted_bases.csv +6 -0
  64. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/mute_freqs.csv +28 -0
  65. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/muted_bases.csv +7 -0
  66. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/v_hamming_to_true_naive.csv +4 -0
  67. test/new-results/annotate-new-simu-annotation-performance/sw/mutation/v_muted_bases.csv +4 -0
  68. test/new-results/annotate-new-simu.yaml +1 -0
  69. test/new-results/cache-new-partition.csv +59 -0
  70. test/new-results/get-selection-metrics-new-simu.yaml +1 -0
  71. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/d_3p_del.csv +7 -0
  72. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/d_5p_del.csv +6 -0
  73. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/dj_insertion.csv +8 -0
  74. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/fv_insertion.csv +10 -0
  75. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/j_3p_del.csv +4 -0
  76. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/j_5p_del.csv +8 -0
  77. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/jf_insertion.csv +4 -0
  78. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/shm_indel_length.csv +8 -0
  79. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/v_3p_del.csv +4 -0
  80. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/v_5p_del.csv +4 -0
  81. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/boundaries/vd_insertion.csv +6 -0
  82. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/d_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  83. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/d_fraction_correct_vs_mute_freq.csv +28 -0
  84. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/d_gene.csv +5 -0
  85. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/j_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  86. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/j_fraction_correct_vs_mute_freq.csv +28 -0
  87. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/j_gene.csv +5 -0
  88. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/v_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  89. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/v_fraction_correct_vs_mute_freq.csv +28 -0
  90. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/v_gene.csv +5 -0
  91. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/cdr3_hamming_to_true_naive.csv +5 -0
  92. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/cdr3_muted_bases.csv +5 -0
  93. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/d_hamming_to_true_naive.csv +4 -0
  94. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/d_muted_bases.csv +4 -0
  95. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/hamming_to_true_naive.csv +5 -0
  96. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/j_hamming_to_true_naive.csv +4 -0
  97. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/j_muted_bases.csv +5 -0
  98. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/mute_freqs.csv +28 -0
  99. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/muted_bases.csv +5 -0
  100. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/v_hamming_to_true_naive.csv +4 -0
  101. test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/v_muted_bases.csv +4 -0
  102. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/d_3p_del.csv +8 -0
  103. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/d_5p_del.csv +6 -0
  104. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/dj_insertion.csv +7 -0
  105. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/fv_insertion.csv +4 -0
  106. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/j_3p_del.csv +4 -0
  107. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/j_5p_del.csv +9 -0
  108. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/jf_insertion.csv +4 -0
  109. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/shm_indel_length.csv +8 -0
  110. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/v_3p_del.csv +4 -0
  111. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/v_5p_del.csv +4 -0
  112. test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/vd_insertion.csv +6 -0
  113. test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/d_fraction_correct_vs_mute_freq.csv +28 -0
  114. test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/d_gene.csv +5 -0
  115. test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/j_fraction_correct_vs_mute_freq.csv +28 -0
  116. test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/j_gene.csv +5 -0
  117. test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/v_fraction_correct_vs_mute_freq.csv +28 -0
  118. test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/v_gene.csv +5 -0
  119. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/cdr3_hamming_to_true_naive.csv +6 -0
  120. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/cdr3_muted_bases.csv +7 -0
  121. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/d_hamming_to_true_naive.csv +5 -0
  122. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/d_muted_bases.csv +5 -0
  123. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/hamming_to_true_naive.csv +6 -0
  124. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/j_hamming_to_true_naive.csv +4 -0
  125. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/j_muted_bases.csv +6 -0
  126. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/mute_freqs.csv +28 -0
  127. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/muted_bases.csv +7 -0
  128. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/v_hamming_to_true_naive.csv +4 -0
  129. test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/v_muted_bases.csv +4 -0
  130. test/new-results/multi-annotate-new-simu.yaml +1 -0
  131. test/new-results/partition-new-simu/fasttree/iclust-0/fasttree.out +1 -0
  132. test/new-results/partition-new-simu/fasttree/iclust-0/input-seqs.fa +24 -0
  133. test/new-results/partition-new-simu/fasttree/iclust-0/log +23 -0
  134. test/new-results/partition-new-simu/fasttree/iclust-1/fasttree.out +1 -0
  135. test/new-results/partition-new-simu/fasttree/iclust-1/input-seqs.fa +16 -0
  136. test/new-results/partition-new-simu/fasttree/iclust-1/log +23 -0
  137. test/new-results/partition-new-simu/fasttree/iclust-2/fasttree.out +1 -0
  138. test/new-results/partition-new-simu/fasttree/iclust-2/input-seqs.fa +16 -0
  139. test/new-results/partition-new-simu/fasttree/iclust-2/log +22 -0
  140. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/d_3p_del.csv +7 -0
  141. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/d_5p_del.csv +6 -0
  142. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/dj_insertion.csv +8 -0
  143. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/fv_insertion.csv +10 -0
  144. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/j_3p_del.csv +4 -0
  145. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/j_5p_del.csv +8 -0
  146. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/jf_insertion.csv +4 -0
  147. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/shm_indel_length.csv +8 -0
  148. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/v_3p_del.csv +4 -0
  149. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/v_5p_del.csv +4 -0
  150. test/new-results/partition-new-simu-annotation-performance/hmm/boundaries/vd_insertion.csv +6 -0
  151. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/d_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  152. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/d_fraction_correct_vs_mute_freq.csv +28 -0
  153. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/d_gene.csv +5 -0
  154. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/j_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  155. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/j_fraction_correct_vs_mute_freq.csv +28 -0
  156. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/j_gene.csv +5 -0
  157. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/v_allele_fraction_correct_vs_per_gene_support.csv +28 -0
  158. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/v_fraction_correct_vs_mute_freq.csv +28 -0
  159. test/new-results/partition-new-simu-annotation-performance/hmm/gene-call/v_gene.csv +5 -0
  160. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/cdr3_hamming_to_true_naive.csv +5 -0
  161. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/cdr3_muted_bases.csv +5 -0
  162. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/d_hamming_to_true_naive.csv +4 -0
  163. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/d_muted_bases.csv +4 -0
  164. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/hamming_to_true_naive.csv +5 -0
  165. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/j_hamming_to_true_naive.csv +4 -0
  166. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/j_muted_bases.csv +5 -0
  167. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/mute_freqs.csv +28 -0
  168. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/muted_bases.csv +5 -0
  169. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/v_hamming_to_true_naive.csv +4 -0
  170. test/new-results/partition-new-simu-annotation-performance/hmm/mutation/v_muted_bases.csv +4 -0
  171. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/d_3p_del.csv +8 -0
  172. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/d_5p_del.csv +6 -0
  173. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/dj_insertion.csv +7 -0
  174. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/fv_insertion.csv +4 -0
  175. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/j_3p_del.csv +4 -0
  176. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/j_5p_del.csv +9 -0
  177. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/jf_insertion.csv +4 -0
  178. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/shm_indel_length.csv +8 -0
  179. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/v_3p_del.csv +4 -0
  180. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/v_5p_del.csv +4 -0
  181. test/new-results/partition-new-simu-annotation-performance/sw/boundaries/vd_insertion.csv +6 -0
  182. test/new-results/partition-new-simu-annotation-performance/sw/gene-call/d_fraction_correct_vs_mute_freq.csv +28 -0
  183. test/new-results/partition-new-simu-annotation-performance/sw/gene-call/d_gene.csv +5 -0
  184. test/new-results/partition-new-simu-annotation-performance/sw/gene-call/j_fraction_correct_vs_mute_freq.csv +28 -0
  185. test/new-results/partition-new-simu-annotation-performance/sw/gene-call/j_gene.csv +5 -0
  186. test/new-results/partition-new-simu-annotation-performance/sw/gene-call/v_fraction_correct_vs_mute_freq.csv +28 -0
  187. test/new-results/partition-new-simu-annotation-performance/sw/gene-call/v_gene.csv +5 -0
  188. test/new-results/partition-new-simu-annotation-performance/sw/mutation/cdr3_hamming_to_true_naive.csv +6 -0
  189. test/new-results/partition-new-simu-annotation-performance/sw/mutation/cdr3_muted_bases.csv +7 -0
  190. test/new-results/partition-new-simu-annotation-performance/sw/mutation/d_hamming_to_true_naive.csv +5 -0
  191. test/new-results/partition-new-simu-annotation-performance/sw/mutation/d_muted_bases.csv +5 -0
  192. test/new-results/partition-new-simu-annotation-performance/sw/mutation/hamming_to_true_naive.csv +6 -0
  193. test/new-results/partition-new-simu-annotation-performance/sw/mutation/j_hamming_to_true_naive.csv +4 -0
  194. test/new-results/partition-new-simu-annotation-performance/sw/mutation/j_muted_bases.csv +6 -0
  195. test/new-results/partition-new-simu-annotation-performance/sw/mutation/mute_freqs.csv +28 -0
  196. test/new-results/partition-new-simu-annotation-performance/sw/mutation/muted_bases.csv +7 -0
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  634. test/paired/new-results/test/simu/igh+igk/igk.yaml +1 -0
  635. test/paired/new-results/test/simu/igh+igl/igh.yaml +1 -0
  636. test/paired/new-results/test/simu/igh+igl/igl.yaml +1 -0
  637. test/paired/new-results/test/simu/igh.yaml +1 -0
  638. test/paired/new-results/test/simu/igk.yaml +1 -0
  639. test/paired/new-results/test/simu/igl.yaml +1 -0
  640. test/paired/new-results/test/simu/meta.yaml +1 -0
  641. test/paired/new-results/test.log +215 -33
  642. test/test.py +6 -0
  643. test/trees.nwk +100 -0
  644. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/cf-alleles.py +0 -0
  645. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/cf-germlines.py +0 -0
  646. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/compare-plotdirs.py +0 -0
  647. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/extract-pairing-info.py +0 -0
  648. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/gctree-run.py +0 -0
  649. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/get-naive-probabilities.py +0 -0
  650. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/parse-output.py +0 -0
  651. {partis_bcr-1.0.11.post1.dev1.data → partis_bcr-1.0.11.post1.dev7.data}/scripts/split-loci.py +0 -0
  652. {partis_bcr-1.0.11.post1.dev1.dist-info → partis_bcr-1.0.11.post1.dev7.dist-info}/WHEEL +0 -0
  653. {partis_bcr-1.0.11.post1.dev1.dist-info → partis_bcr-1.0.11.post1.dev7.dist-info}/entry_points.txt +0 -0
  654. {partis_bcr-1.0.11.post1.dev1.dist-info → partis_bcr-1.0.11.post1.dev7.dist-info}/licenses/COPYING +0 -0
  655. {partis_bcr-1.0.11.post1.dev1.dist-info → partis_bcr-1.0.11.post1.dev7.dist-info}/top_level.txt +0 -0
test/paired/new-results/test/simu/igh+igk/igh.yaml ADDED
@@ -0,0 +1 @@
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV1-18*01": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-2*02": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-46*03": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTTTCCTGCAAGGCATCTGGATACACCTTCACCAGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAATAATCAACCCTAGTGGTGGTAGCACAAGCTACGCACAGAAGTTCCAGGGCAGAGTCACCATGACCAGGGACACGTCCACGAGCACAGTCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCTAGAGA", "IGHV1-69*04": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-8*01": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCAGTTATGATATCAACTGGGTGCGACAGGCCACTGGACAAGGGCTTGAGTGGATGGGATGGATGAACCCTAACAGTGGTAACACAGGCTATGCACAGAAGTTCCAGGGCAGAGTCACCATGACCAGGAACACCTCCATAAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGG", "IGHV2-5*02": "CAGATCACCTTGAAGGAGTCTGGTCCTACGCTGGTGAAACCCACACAGACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACCATCACCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACATATTACTGTGCACACAGAC", "IGHV2-70*01": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATAC", "IGHV3-11*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV3-15*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTAAAGCCTGGGGGGTCCCTTAGACTCTCCTGTGCAGCCTCTGGATTCACTTTCAGTAACGCCTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTGGCCGTATTAAAAGCAAAACTGATGGTGGGACAACAGACTACGCTGCACCCGTGAAAGGCAGATTCACCATCTCAAGAGATGATTCAAAAAACACGCTGTATCTGCAAATGAACAGCCTGAAAACCGAGGACACAGCCGTGTATTACTGTACCACAGA", "IGHV3-20*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGTGTGGTACGGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTGATGATTATGGCATGAGCTGGGTCCGCCAAGCTCCAGGGAAGGGGCTGGAGTGGGTCTCTGGTATTAATTGGAATGGTGGTAGCACAGGTTATGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCCCTGTATCTGCAAATGAACAGTCTGAGAGCCGAGGACACGGCCTTGTATCACTGTGCGAGAGA", "IGHV3-21*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCCTGGTCAAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATAGCATGAACTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCATCCATTAGTAGTAGTAGTAGTTACATATACTACGCAGACTCAGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-23*01": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGA", "IGHV3-30*04": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATGCTATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATCATATGATGGAAGTAATAAATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-33*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-48*02": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATAGCATGAACTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTAGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAATGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGACGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-66*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCAGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-74*01": "GAGGTGCAGCTGGTGGAGTCCGGGGGAGGCTTAGTTCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTACTGGATGCACTGGGTCCGCCAAGCTCCAGGGAAGGGGCTGGTGTGGGTCTCACGTATTAATAGTGATGGGAGTAGCACAAGCTACGCGGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACACGCTGTATCTGCAAATGAACAGTCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCAAGAGA", "IGHV3-9*01": "GAAGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGCAGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTGATGATTATGCCATGCACTGGGTCCGGCAAGCTCCAGGGAAGGGCCTGGAGTGGGTCTCAGGTATTAGTTGGAATAGTGGTAGCATAGGCTATGCGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCCCTGTATCTGCAAATGAACAGTCTGAGAGCTGAGGACACGGCCTTGTATTACTGTGCAAAAGATA", "IGHV4-31*03": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCACAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGCCAGCACCCAGGGAAGGGCCTGGAGTGGATTGGGTACATCTATTACAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTTACCATATCAGTAGACACGTCTAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACTGCCGCGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-39*01": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACA", "IGHV4-4*02": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGGGACCCTGTCCCTCACCTGCGCTGTCTCTGGTGGCTCCATCAGCAGTAGTAACTGGTGGAGTTGGGTCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGGAAATCTATCATAGTGGGAGCACCAACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCAGTAGACAAGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-59*11": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGTAGTCACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGA"}, "d": {"IGHD1-1*01": "GGTACAACTGGAACGAC", "IGHD1-14*01": "GGTATAACCGGAACCAC", "IGHD1-20*01": "GGTATAACTGGAACGAC", "IGHD1-26*01": "GGTATAGTGGGAGCTACTAC", "IGHD1-7*01": "GGTATAACTGGAACTAC", "IGHD2-15*01": "AGGATATTGTAGTGGTGGTAGCTGCTACTCC", "IGHD2-21*01": "AGCATATTGTGGTGGTGATTGCTATTCC", "IGHD3-10*01": "GTATTACTATGGTTCGGGGAGTTATTATAAC", "IGHD3-16*03": "GTATTATGATTACATTTGGGGGAGTTATCGTTATACC", "IGHD3-22*01": "GTATTACTATGATAGTAGTGGTTATTACTAC", "IGHD3-3*01": "GTATTACGATTTTTGGAGTGGTTATTATACC", "IGHD3-9*01": "GTATTACGATATTTTGACTGGTTATTATAAC", "IGHD4-17*01": "TGACTACGGTGACTAC", "IGHD5-24*01": "GTAGAGATGGCTACAATTAC", "IGHD6-13*01": "GGGTATAGCAGCAGCTGGTAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC", "IGHD6-6*01": "GAGTATAGCAGCTCGTCC", "IGHD7-27*01": "CTAACTGGGGA"}, "j": {"IGHJ1*01": "GCTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "IGHJ2*01": "CTACTGGTACTTCGATCTCTGGGGCCGTGGCACCCTGGTCACTGTCTCCTCAG", "IGHJ3*02": "TGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG", "IGHJ4*02": "ACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ5*02": "ACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ6*02": "ATTACTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"}}, "cyst-positions": {"IGHV1-69*04": 285, "IGHV3-74*01": 285, "IGHV2-5*02": 288, "IGHV4-59*11": 282, "IGHV3-9*01": 285, "IGHV1-2*02": 285, "IGHV3-33*01": 285, "IGHV3-21*01": 285, "IGHV2-70*01": 288, "IGHV1-18*01": 285, "IGHV4-31*03": 288, "IGHV3-7*01": 285, "IGHV3-11*01": 285, "IGHV3-30*04": 285, "IGHV3-66*01": 282, "IGHV1-8*01": 285, "IGHV4-39*01": 288, "IGHV1-46*03": 285, "IGHV3-23*01": 285, "IGHV3-15*01": 291, "IGHV3-20*01": 285, "IGHV3-48*02": 285, "IGHV4-4*02": 285}, "tryp-positions": {"IGHJ4*02": 14, "IGHJ2*01": 19, "IGHJ3*02": 16, "IGHJ6*02": 29, "IGHJ5*02": 17, "IGHJ1*01": 18}}, "partitions": [{"logprob": 0.0, "n_clusters": 7, "n_procs": 1, "partition": [["a59a86319d-igh", "63c1e600bb-igh", "96f6ea6b59-igh", "57810cb714-igh", "da88a0f870-igh", "3659f04e0b-igh", "962cf676f9-igh", "8abdecedf6-igh", "f9494fc130-igh"], ["816fc82f73-igh", "810f8f7056-igh", "997456da00-igh", "047be6c743-igh", "7e90b4242e-igh", "14e4ff3a6a-igh"], ["5b83db58bc-igh"], ["dde37df0f3-igh", "ceb855766e-igh", "638b01f2ff-igh", "dc03113497-igh", "42584a044c-igh", "7bfd25e622-igh"], ["a1f869b08f-igh"], ["626eeaeec5-igh"], ["7713c8e94f-igh", "2e42f5c485-igh", "feeff50eb0-igh", "cb9b787bf3-igh", "2f6c99db02-igh", "6a1829447f-igh", "d7b2f887dc-igh", "99ec3a50a4-igh", "9b1977f91e-igh", "475a17c3bd-igh", "bc72018f26-igh", "9cfd60a4c8-igh", "90bc43bbe6-igh"]]}], "events": [{"has_shm_indels": [false, false, false, false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", "", ""], "reco_id": "8a9d39afe0", "tree": "[&R] ((((((f9494fc130-igh:0.055287905039308034,3659f04e0b-igh:0.055287905039308034)ltu:0.001907871751482972,96f6ea6b59-igh:0.057195776789943094)lnz:0.04154495365344709,(a59a86319d-igh:0.02395363419572574,(da88a0f870-igh:0.014620720835236483,88969bbdba-igh:0.014620720835236483)abi:0.009332913368968337)qtz:0.07478709624766444)acj:0.0024569791075291893,63c1e600bb-igh:0.10119770956109427)oxy:0.006776771767820858,(962cf676f9-igh:0.09311353123087399,(57810cb714-igh:0.08859795668721575,8abdecedf6-igh:0.08859795668721575)fop:0.004515574511437732)btu:0.014860950100584865)dhn:0.006096904164877114)akt:0.0;", "unique_ids": ["a59a86319d-igh", "63c1e600bb-igh", "96f6ea6b59-igh", "57810cb714-igh", "da88a0f870-igh", "3659f04e0b-igh", "962cf676f9-igh", "8abdecedf6-igh", "f9494fc130-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ6*02", "cdr3_length": 69, "mut_freqs": [0.1038961038961039, 0.08311688311688312, 0.11428571428571428, 0.08571428571428572, 0.09350649350649351, 0.11948051948051948, 0.09610389610389611, 0.0987012987012987, 0.11428571428571428], "n_mutations": [40, 32, 44, 33, 36, 46, 37, 38, 44], "input_seqs": ["CAGGTGCAGCTGGTGGAGTTTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCTCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTAGGTCCACCAAGCTCCAGGCAAGTGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGGAGACTCAGTGAAACGCCAATTCTCCATCTCCAGAGACAATTCCAAGAACGAGCTGTATCTGCTAATGAACAGCCTCCGAGCCGAGGAAACGGCTGTGTATTGCTGTGCGAGGAAGTTTGTATTTGCAGCAACTGCTGATATAGTTTACTACTCCTACGGTATGGACGTCTGGGACAAAAGGACCACGGTCACCGTCTCCTAAG", "TAGGTGCAGCTGGTGGAGTTTGAGGGAGGCCTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCATTGGGTCCGCCAGGCTCCAGGCAAGTGGCTTGAGTGGGTGGCAGTTATATGGTATGATGGAACTAATAAATACTATGCAGACTCCGTGAAGGGCCGGGTCACCATCTCTAGAGACACTTCCAAGAACACGCTGTATCTTGAAATGAACAGCCTGAGAGCCGAGGACACGGCTTTGTATTACTGTGCGGGAGAACCTTCATTTGCGCGAATTTTCGCTATGCGTTACTATTACTACGGTATGGACGTCTGGGGCCAAAGGATCACGGTCACTGTGTCCTCAG", "CAAGTGCAGCTCGTGGAGTTTCGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGAGTCTTCCGTGCAGCGTCTGGATCCACCTTCAGTTGCTATGGCATGCACTAGGTCCGCCAGGCTCCAGGCAAGTGCCTGGAGTAGGTGCCAGTTATTTGGTATGATGGAAGTAATGAATATTATGCAGACTCCGCGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACACTGTACCTGCATATGAACAGCCTGAGAGCCAGGAACACAGCTGTGTATTGCTGTGCGAGACAGCTTACCTTTAGACGAATGTTCGCTATCTTTTACTAGTACTACGGTATGGACGTCTGGCGCCAAAGAACCACGGTCACCATCTCCTCAG", "CAGGTGCAGCTGGTCGAGTTTGGGGCTGGCGTGGTCCAGCCTGCGAGGTCCCTGAGACTCTCCTGTGCAGTGTCTGGGTTCACCTTCAGTAGCCATGGCACGCACTGGGTCCCCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAATTATATGGTATGATGGAAGTAATAAATACTGCGCAGACTCCGTGAAGGGCCGATTCCCCATCTCCAGAGACAATTCTAACAAAACGCTGTATCTGCAAATGAACAGCCTGAGCGCCGTGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGTCTAATCAGTTTTCTTCCTTACTAATACTACGGTATGGACGTCTGGGGCTAAAGGACCACGCTCACCGTCTCCTCAG", "CAGGTGCAGCTGGTGGAGTTTGGGGGAGGCGTGCTCCAGCCTGGGAGGTCTCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAACTATGGCATGCACTAGGTCCACGAAGCTCCAGGCAAGTGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGGAGACTCCGTGAAACGCCGATTCTCCATCTCCAGAGACAATTCCAAGAACGAGTTGTATCTGCTAATGAACAGCCTGAGAGCCGAGGAAACGGCTGTGTATTGCTGTGCGAGGAAGATTCCATTTGCGGCAACTATTTGTGTACCTTTCTACTCCTACGGTATGGACGTCTGGGACGAAAGGACCACGGTCACCGTCTCCTAAG", "CAGGTGGAGGTCGTGGAGTTTGGGGGAGACGTGGTCCAGCCTGGGAGGTCCCTGAGAGTCTTCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTAGCTCCGCCAGGCTCCAGGGAAGTGCTTGGGGTAGGTGCCAGTTATTTGGTATGATGGAAGTAATAAATATTATGCAGACTTCGCGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACACTGTATCTGCGTGTGCACAGCCTGAAAGGCGAGGACACAGCTGTGTATTACTGTGCGAAACAGATTATAATTAGGCGAATCCTTGCTCTTCTTTACTAGTACTACGGTATGGACGTCTGGCGCCAAAGAACCACGGTCACCGTCTCCTCAG", "CAGGTGCAGGTGGTGGAGTCTCGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGACATTCTTCTGTGCAGCCTCTGGATCCACTTTCAGTAGCCATGACATGCATTGGGTCCGCCAGGCTTCAGGCAAGGGACTGGAGTGGGTGGCAGTTATATGGTATCATGGAAGTAACAAATACTATGTAGACTCCGTGAAGGGCCAATTCACCATCTCCAGAAACAATTCCAAGAACACACTGTATCTGCAAATGAACAGCGTGAGCGGCGAGCACACGGCTGTGTATTACTGTGCGGGAGAAATTACACTTGCGTGGATTATCCTTACAGCTTACTACTACTACGATATGGACGTCTGGGACCAAAGGACCACGGTCACCGTCTTCTCAG", "CAGGCGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGCCCCTGAGCCGCTCCTGTGCAGCGTCTGGATCCACCTTCAGTAGCCATGGCATGCACTGGGTCCGCCAGGCTCGAGGCAAGGGGCTGGAGTGGGTGGCGGTTATATTGTATGATCGAAGTAATAAATACTACGCAGACTCCGTGAAGGGCCGATTTTCCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGACCAGCCCGAGGGCCGAGGATACGGCCGTGTATTACTGTGCGAGAAAGGTTACATTTGGAGCTACATCCCTTCTGTCTTGCTACTACTAGGGTCTGGACGTCTGGGGCCAAAGGACCACGGTCACCGCCTCCTCAC", "CAGGTGCAGCTCGTGGAGTTTGGGGGAGGTGTGATCCAGACTCGGAGGTCCCTGAGAGTCTTCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTAGGTCCGCCAGGCTCCAGGCAAGTGCCTGGAGTGGGTGCCAGTTATTTGGTATGATCGAAATAATAAATATTATGCAGACTCCGCGAAGGCCCGATTTACCATCTCCAGAGACAATTCCAATAACACACTGTATCTGCATATGAACAGCCTGAGAGCCGAGGACACAGCTGTGTATTACTGTGCGAGCCAGGTTATTTTCAGGCGAACCTTCAGCATACTTTACTAGTACTACGGTTTGGACGTCTGGCGCCAAAGAACCACGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCTTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "T", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true, true], "stops": [true, true, true, true, true, true, false, true, true], "paired-uids": [[], [], ["2d29c65222-igh", "2d29c65222-igl", "96f6ea6b59-igk"], ["57810cb714-igk"], ["da88a0f870-igk"], [], ["962cf676f9-igk"], ["8abdecedf6-igk"], ["f9494fc130-igk"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 351}}, {"has_shm_indels": [false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", ""], "reco_id": "ca482b4daf", "tree": "[&R] ((7e90b4242e-igh:0.051463402886689776,(((14e4ff3a6a-igh:0.03295473809371059,(810f8f7056-igh:0.0030891486978107795,816fc82f73-igh:0.0030891486978107795)dnp:0.029865589396392934)qxy:0.006914997126175454,8a4877bbfc-igh:0.0398697352248173)gjl:0.008515126271973084,(047be6c743-igh:0.03688091087486433,(964f9e33e6-igh:0.0057111060969196594,997456da00-igh:0.0057111060969196594)fuz:0.031169804777944676)afj:0.01150395062192605)cvy:0.0030785413894062613)pvx:0.01487816253686522)bhv:0.0;", "unique_ids": ["816fc82f73-igh", "810f8f7056-igh", "997456da00-igh", "047be6c743-igh", "7e90b4242e-igh", "14e4ff3a6a-igh"], "invalid": false, "v_gene": "IGHV2-5*02", "d_gene": "IGHD1-20*01", "j_gene": "IGHJ1*01", "cdr3_length": 51, "mut_freqs": [0.06756756756756757, 0.06756756756756757, 0.05675675675675676, 0.07837837837837838, 0.05405405405405406, 0.062162162162162166], "n_mutations": [25, 25, 21, 29, 20, 23], "input_seqs": ["TAGATCACCTTGGACGAGTCTGGTCCTACGGTGGTGAAACCCACACACACCCTCACGCTGACCTGCAGCTTCTCTCGGTTCTCACTCAGCATTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACTGTCACCAAGGATACCTCCGAAAACTAGGTGGTCCATGCAATGACCGACATGGACCCTGTGGACTCAGTCACGTATTACTGTCCACACACGGGAAGTATAACTGGAATCCTTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "TAGATCACCTTGGACGAGTCTGGTCCTACGGTGGTGAAACCCACACACACCCTCACGCTGACCTGCAGCTTCTCTCGGTTCTCACTCAGCATTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACTGTCACCAAGGATACCTCCGAAAACTAGGTGGTCCATACAATGACCGACATGGACCCTGTGGACTCAGTCACGTATTACTGTCCACACACGGGAACTATAACTGGAATCCTTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGATGACCTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCACCGGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGGGCAGGCTCACCATCACCAAGGACGCCTCCGAAAACTAGGTGGTCCATACAATGACCGACATGGACCCTGTGGACACAGCCACATATTACTGTCCACACATCGGAGATATAGCTGATACCCTTGAATACTTCCAGCACTGGGACCAGGGGACCCTGGTCACCGTCTCCTCAG", "CAGATCACTTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCGCCTTCTTTCGGTTTTCACTCAGCACTAGTGGAGTGCCTGTGGGCTGGATCCGTCAGCCCCCAGGAAACGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGGGCAGGCTCACCATCACCAAGGACACCTCCGAAAACTAGGTGGTCCATACAATGACCAACATGGACCCTGTGGACACAGCCACATATTACTGTCCACACGTCGGGGGTATAATTGGTTGCCCCGAATTCTTCCACCACTGGGGCCAGGGCACCCTGGTCACCGTCTGCACAG", "CAGATCACCTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATACGTGCTCCAGCCCATCTCTGAAGAGCAGGCTCACCATCACCAAAGACTCCTCCGAAAACCAGGTCGTCCATACAATGACCGACATGGACCCTGTGGACACAGCCACATATTACTGTGTACACATCGGATATATGACTGGGCTGGTGGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGATCACCTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAACCCCCAGGAAAGACCCTGGCGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACTGCCCATTTCTGAAGAGCAGGCTCACCATCACCAAGGATACCTCCGAAAACTAGGTGGTCCATACAATGACCGACATGGACCCTGTGGACTCACTCACATATTACTGTCCACACACTGGAGTTATATCTGGGACCTTGGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAC"], "naive_seq": "CAGATCACCTTGAAGGAGTCTGGTCCTACGCTGGTGAAACCCACACAGACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACCATCACCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACATATTACTGTGCACACACCGGAGGTATAACTGGAACGCTGGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], []], "v_3p_del": 4, "d_5p_del": 0, "d_3p_del": 2, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "ACCGGA", "dj_insertion": "CTG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [true, true, true, true, false, true], "paired-uids": [["816fc82f73-igk"], ["810f8f7056-igk", "da96f2c471-igh", "da96f2c471-igl"], ["94040b8e55-igh", "94040b8e55-igl", "997456da00-igk"], ["047be6c743-igk"], ["7e90b4242e-igk"], ["14e4ff3a6a-igk"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 336}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "8ff5ec4520", "tree": "[&R] (5b83db58bc-igh:-0.0)ehv:0.0;", "unique_ids": ["5b83db58bc-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ6*02", "cdr3_length": 69, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCCTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCCTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "C", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["0e191a1e72-igh", "5b83db58bc-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 351}}, {"qr_gap_seqs": ["", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", ""], "reco_id": "6564755f20", "tree": "[&R] ((7bfd25e622-igh:-0.0,(((dde37df0f3-igh:-0.0,(42584a044c-igh:-0.0,ceb855766e-igh:-0.0)gms:-0.0)abo:-0.0,638b01f2ff-igh:-0.0)fhk:-0.0,dc03113497-igh:-0.0)gho:-0.0)vwy:-0.0)hnz:0.0;", "unique_ids": ["dde37df0f3-igh", "ceb855766e-igh", "638b01f2ff-igh", "dc03113497-igh", "42584a044c-igh", "7bfd25e622-igh"], "invalid": false, "v_gene": "IGHV3-23*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.0, 0.0, 0.0, 0.0, 0.0, 0.0], "n_mutations": [0, 0, 0, 0, 0, 0], "input_seqs": ["GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false, false, false, false, false, false], "naive_seq": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 12, "d_3p_del": 3, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GCTTCGCA", "dj_insertion": "TGCAA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [false, false, false, false, false, false], "paired-uids": [["88ea4d6f94-igh", "dde37df0f3-igk"], ["ceb855766e-igk"], ["638b01f2ff-igk"], [], ["42584a044c-igk"], ["7bfd25e622-igk", "f74e482a75-igh", "f74e482a75-igl"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 327}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "b2144fab8e", "tree": "[&R] (a1f869b08f-igh:0.052028153902089515)bfo:0.0;", "unique_ids": ["a1f869b08f-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ6*02", "cdr3_length": 69, "mut_freqs": [0.06493506493506493], "n_mutations": [25], "input_seqs": ["CATGTGCAGCTGGTGGAGTCTGGGGGAGGTGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTACAGCGTCTGGATTCACCTTCAGTAGGTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAAGGGCTGGAGTGCGTGGCGGTTATATGGTATGATGGAAGTGATAAATGCTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTTCCAGAACACGCTGTATCTGCAAATGAACAACCTGAGAGCCGAGGACACCGCTGTGTATTACTGTGCGAGAGACATTACAATTACAGAACTTACCGCCATACGCTACTACTACTACGGTATGGACGTCTGGGGCCGAGGGACCACGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCCTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "C", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["02c4dcf740-igh", "02c4dcf740-igl", "a1f869b08f-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 351}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "182e588062", "tree": "[&R] (626eeaeec5-igh:0.05486906638979231)emy:0.0;", "unique_ids": ["626eeaeec5-igh"], "invalid": false, "v_gene": "IGHV3-23*01", "d_gene": "IGHD5-24*01", "j_gene": "IGHJ4*02", "cdr3_length": 51, "mut_freqs": [0.05722070844686648], "n_mutations": [21], "input_seqs": ["GAGGTGCAGCTGTTGGAGTCTGGGGGAGCCTTGGTACAGCCTGGGGGCTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCGGCTATTTGTGGTAGTGGTGGTAGTACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCAACTCCAGAGACAATTCCAAGAACACGCTGTGTCTGCAAATGAACAGCCTGAGAGCCGGGGACAGGGCCGTATATTACTGTGCTTGGGGTTGAGGATCGCGTAGAAATAGCTATAATTTTGACTACTGGGACCAGTGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGGCTGGATGGGGAGCGCGTAGAGATGGCTACAATTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 6, "d_5p_del": 0, "d_3p_del": 3, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GGCTGGATGGGGAGCGC", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "paired-uids": [["626eeaeec5-igk", "c022154f42-igh"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 333}}, {"qr_gap_seqs": ["", "", "", "", "", "", "", "", "", "", "", "CAGGTCCAGCTGTAGCCTGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTAGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGTGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", "", "", "", "", "CAGGTCCAGCTG......GTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", "", "", "", "", "CAGGTCCAGCTGGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTAGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGTGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", ""], "reco_id": "d217d13f25", "tree": "[&R] (((475a17c3bd-igh:0.024434724505878126,((9cfd60a4c8-igh:0.0005385395631263077,bc72018f26-igh:0.0005385395631263077)aik:0.0120395529242032,((7713c8e94f-igh:0.007203530106460863,feeff50eb0-igh:0.007203530106460863)mqw:0.00395603746532079,(cb9b787bf3-igh:0.009662112432925023,((90bc43bbe6-igh:0.0005324356364431531,9b1977f91e-igh:0.0005324356364431531)opz:0.00020492835351040137,99ec3a50a4-igh:0.000737363989865308)acv:0.00892474844460403)bfo:0.001497455137753548)der:0.0014185249159890893)aem:0.011856632019431084)mtv:0.003920582495277975,((6a1829447f-igh:0.01855194606246793,2f6c99db02-igh:0.01855194606246793)aly:0.007805482419400395,(2e42f5c485-igh:0.00028151529083928547,d7b2f887dc-igh:0.00028151529083928547)dfj:0.02607591318463116)isu:0.001997878521273324)vwz:0.0013248247968210064)hkw:0.0;", "unique_ids": ["7713c8e94f-igh", "2e42f5c485-igh", "feeff50eb0-igh", "cb9b787bf3-igh", "2f6c99db02-igh", "6a1829447f-igh", "d7b2f887dc-igh", "99ec3a50a4-igh", "9b1977f91e-igh", "475a17c3bd-igh", "bc72018f26-igh", "9cfd60a4c8-igh", "90bc43bbe6-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ4*02", "cdr3_length": 42, "mut_freqs": [0.0223463687150838, 0.036312849162011177, 0.025139664804469275, 0.0335195530726257, 0.04189944134078212, 0.0335195530726257, 0.036312849162011177, 0.036312849162011177, 0.0335195530726257, 0.0223463687150838, 0.027932960893854747, 0.0335195530726257, 0.0335195530726257], "n_mutations": [8, 13, 9, 12, 15, 12, 13, 13, 12, 8, 10, 12, 12], "input_seqs": ["CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCCATGCTATCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGACACAAAGTTTCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTCGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCACCTTGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAGGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACGGGGGACAAATCCACGAGCACACCCTACATGGAGCTGAGCAGCCTGAGATCTAAGGACATGGCCGTGTATTACTGTGCGAGCTTTTGGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTTTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAAGCTTCTGGAGGCACCTTCAGCAGCCATGCTATCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGATTGTCGTAGGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTATCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAACCTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACATGGCCGTGTATTACTGTGCGAGGTTGTGGTAGGCGCATAGTTTCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAACGCTTCTGGAGGCGCCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCTAGGGCAGAGTCACGATTACCACGGACAAATCCGCGAGCCCAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATGACTGTGCGAGGTTATCCCAAGCGCATGCTTTTTTTGAATACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTAGTGCAGTCTGCGGCTGAGCTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAACGCTTCTGGAGGCACCTTCAGCAGCTTTGCTATCAGCTGGGTGCGACAGGCGCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATTCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCACGGACAAATCCACGAGCACAGCCTAGATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCTATCGCATGCCCATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTCGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCACCTTGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAGGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACGGGGGACAAATCCACGAGCACACCCTACATGGAGCTGAGCAGCCTGAGATCTAAGGACATGGCCGTGTATTACTGTGCGAGCTTTTGGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTTTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTGTCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATCGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGCCACGTAGCTTTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTGTCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATCGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGCCACGTAGTTTTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCCCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGCTTACCGCGGACAAATCCACGACCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGTCAGGTTATTACAGGCACATAGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGTAGCCTGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTAGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGTGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTGTCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATCGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGCCACGTAGTTTTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false, false, false, false, false, false, false, false, false, false, false, true, false], "naive_seq": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], [], [], [], [], []], "v_3p_del": 3, "d_5p_del": 24, "d_3p_del": 7, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "G", "dj_insertion": "CAGGCACATAGTTCC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true, true, true, true, true, true], "stops": [true, false, true, true, true, true, false, true, true, false, true, true, true], "paired-uids": [["7713c8e94f-igk"], ["2e42f5c485-igk"], ["feeff50eb0-igk"], ["cb9b787bf3-igk"], ["2f6c99db02-igk"], ["6a1829447f-igk"], ["d7b2f887dc-igk"], ["3de3240f4c-igh", "3de3240f4c-igl", "99ec3a50a4-igk"], [], ["475a17c3bd-igk", "4e6de5d38d-igh", "4e6de5d38d-igl"], [], ["9cfd60a4c8-igk"], []], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 324}}]}
test/paired/new-results/test/simu/igh+igk/igk.yaml ADDED
@@ -0,0 +1 @@
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igk", "functionalities": {}, "seqs": {"v": {"IGKV1-12*01": "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTCC", "IGKV1-27*01": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCGAGTCAGGGCATTAGCAATTATTTAGCCTGGTATCAGCAGAAACCAGGGAAAGTTCCTAAGCTCCTGATCTATGCTGCATCCACTTTGCAATCAGGGGTCCCATCTCGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATGTTGCAACTTATTACTGTCAAAAGTATAACAGTGCCCCTCC", "IGKV1-33*01": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCAGGCGAGTCAGGACATTAGCAACTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTACGATGCATCCAATTTGGAAACAGGGGTCCCATCAAGGTTCAGTGGAAGTGGATCTGGGACAGATTTTACTTTCACCATCAGCAGCCTGCAGCCTGAAGATATTGCAACATATTACTGTCAACAGTATGATAATCTCCCTCC", "IGKV1-5*01": "GACATCCAGATGACCCAGTCTCCTTCCACCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCCAGTCAGAGTATTAGTAGCTGGTTGGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGATGCCTCCAGTTTGGAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGAATTCACTCTCACCATCAGCAGCCTGCAGCCTGATGATTTTGCAACTTATTACTGCCAACAGTATAATAGTTATTCTCC", "IGKV1-8*03": "GCCATCCGGATGACCCAGTCTCCATCCTCACTCTCTGCATCTACAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGTTATTTAGCCTGGTATCAGCAAAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCACTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCTGCCTGCAGTCTGAAGATTTTGCAACTTATTACTGTCAACAGTATTATAGTTACCCTCC", "IGKV1-9*01": "GACATCCAGTTGACCCAGTCTCCATCCTTCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCCAGTCAGGGCATTAGCAGTTATTTAGCCTGGTATCAGCAAAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCACTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGAATTCACTCTCACAATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTATTACTGTCAACAGCTTAATAGTTACCCTCC", "IGKV1D-13*02": "GCCATCCAGTTGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGGGCATTAGCAGTGCTTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCTCCTAAGCTCCTGATCTATGATGCCTCCAGTTTGGAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTATTACTGTCAACAGTTTAATAGTTACCCTCA", "IGKV1D-39*01": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCC", "IGKV2-24*01": "GATATTGTGATGACCCAGACTCCACTCTCCTCACCTGTCACCCTTGGACAGCCGGCCTCCATCTCCTGCAGGTCTAGTCAAAGCCTCGTACACAGTGATGGAAACACCTACTTGAGTTGGCTTCAGCAGAGGCCAGGCCAGCCTCCAAGACTCCTAATTTATAAGATTTCTAACCGGTTCTCTGGGGTCCCAGACAGATTCAGTGGCAGTGGGGCAGGGACAGATTTCACACTGAAAATCAGCAGGGTGGAAGCTGAGGATGTCGGGGTTTATTACTGCATGCAAGCTACACAATTTCCTCA", "IGKV2-30*01": "GATGTTGTGATGACTCAGTCTCCACTCTCCCTGCCCGTCACCCTTGGACAGCCGGCCTCCATCTCCTGCAGGTCTAGTCAAAGCCTCGTATACAGTGATGGAAACACCTACTTGAATTGGTTTCAGCAGAGGCCAGGCCAATCTCCAAGGCGCCTAATTTATAAGGTTTCTAACCGGGACTCTGGGGTCCCAGACAGATTCAGCGGCAGTGGGTCAGGCACTGATTTCACACTGAAAATCAGCAGGGTGGAGGCTGAGGATGTTGGGGTTTATTACTGCATGCAAGGTACACACTGGCCTCC", "IGKV2D-28*01": "GATATTGTGATGACTCAGTCTCCACTCTCCCTGCCCGTCACCCCTGGAGAGCCGGCCTCCATCTCCTGCAGGTCTAGTCAGAGCCTCCTGCATAGTAATGGATACAACTATTTGGATTGGTACCTGCAGAAGCCAGGGCAGTCTCCACAGCTCCTGATCTATTTGGGTTCTAATCGGGCCTCCGGGGTCCCTGACAGGTTCAGTGGCAGTGGATCAGGCACAGATTTTACACTGAAAATCAGCAGAGTGGAGGCTGAGGATGTTGGGGTTTATTACTGCATGCAAGCTCTACAAACTCCTCC", "IGKV3-11*01": "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCC", "IGKV3-15*01": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGCCTCC", "IGKV3-20*01": "GAAATTGTGTTGACGCAGTCTCCAGGCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAGCTACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCAGCAGGGCCACTGGCATCCCAGACAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGACTGGAGCCTGAAGATTTTGCAGTGTATTACTGTCAGCAGTATGGTAGCTCACCTCC", "IGKV4-1*02": "GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCCTCC", "IGKV6-21*01": "GAAATTGTGCTGACTCAGTCTCCAGACTTTCAGTCTGTGACTCCAAAGGAGAAAGTCACCATCACCTGCCGGGCCAGTCAGAGCATTGGTAGTAGCTTACACTGGTACCAGCAGAAACCAGATCAGTCTCCAAAGCTCCTCATCAAGTATGCTTCCCAGTCCTTCTCAGGGGTCCCCTCGAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACCCTCACCATCAATAGCCTGGAAGCTGAAGATGCTGCAACGTATTACTGTCATCAGAGTAGTAGTTTACCTCA"}, "d": {"IGKDx-x*x": "A"}, "j": {"IGKJ1*01": "GTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "IGKJ2*01": "TGTACACTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "IGKJ2*03": "TGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "IGKJ2*04": "TGTGCAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "IGKJ3*01": "ATTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "IGKJ4*01": "GCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "IGKJ5*01": "GATCACCTTCGGCCAAGGGACACGACTGGAGATTAAAC"}}, "cyst-positions": {"IGKV1-5*01": 261, "IGKV1-9*01": 261, "IGKV3-20*01": 264, "IGKV2-24*01": 276, "IGKV1-33*01": 261, "IGKV1-12*01": 261, "IGKV2D-28*01": 276, "IGKV1-27*01": 261, "IGKV6-21*01": 261, "IGKV3-11*01": 261, "IGKV1D-39*01": 261, "IGKV1D-13*02": 261, "IGKV3-15*01": 261, "IGKV4-1*02": 279, "IGKV2-30*01": 276, "IGKV1-8*03": 261}, "phen-positions": {"IGKJ3*01": 7, "IGKJ5*01": 7, "IGKJ4*01": 7, "IGKJ2*04": 8, "IGKJ2*03": 8, "IGKJ2*01": 8, "IGKJ1*01": 7}}, "partitions": [{"logprob": 0.0, "n_clusters": 7, "n_procs": 1, "partition": [["96f6ea6b59-igk", "57810cb714-igk", "da88a0f870-igk", "962cf676f9-igk", "8abdecedf6-igk", "f9494fc130-igk"], ["816fc82f73-igk", "810f8f7056-igk", "997456da00-igk", "047be6c743-igk", "8a4877bbfc-igk", "7e90b4242e-igk", "964f9e33e6-igk", "14e4ff3a6a-igk"], ["5b83db58bc-igk"], ["dde37df0f3-igk", "ceb855766e-igk", "638b01f2ff-igk", "42584a044c-igk", "7bfd25e622-igk"], ["a1f869b08f-igk"], ["626eeaeec5-igk"], ["7713c8e94f-igk", "2e42f5c485-igk", "feeff50eb0-igk", "cb9b787bf3-igk", "2f6c99db02-igk", "6a1829447f-igk", "d7b2f887dc-igk", "99ec3a50a4-igk", "475a17c3bd-igk", "9cfd60a4c8-igk"]]}], "events": [{"has_shm_indels": [false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", ""], "reco_id": "8a9d39afe0", "tree": "[&R] ((((((f9494fc130-igk:0.009088188174857324,3659f04e0b-igk:0.009088188174857324)lot:0.00031361465909486536,96f6ea6b59-igk:0.00940180283381281)lmr:0.006829131186103249,(a59a86319d-igk:0.003937482074744522,(da88a0f870-igk:0.002403344133010928,88969bbdba-igk:0.002403344133010928)hxy:0.0015341379431273786)ijo:0.012293451945171535)ajt:0.00040387655229552806,63c1e600bb-igk:0.016634810573884128)gvw:0.0011139611276684994,(962cf676f9-igk:0.015305938845937294,(57810cb714-igk:0.014563671777919713,8abdecedf6-igk:0.014563671777919713)flx:0.000742267062721195)oux:0.00244283285603347)jwy:0.0010022049541410522)bkq:0.0;", "unique_ids": ["96f6ea6b59-igk", "57810cb714-igk", "da88a0f870-igk", "962cf676f9-igk", "8abdecedf6-igk", "f9494fc130-igk"], "invalid": false, "v_gene": "IGKV3-15*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ1*01", "cdr3_length": 30, "mut_freqs": [0.018808777429467086, 0.018808777429467086, 0.03134796238244514, 0.0219435736677116, 0.01567398119122257, 0.0219435736677116], "n_mutations": [6, 6, 10, 7, 5, 7], "input_seqs": ["GAAATAGTGATGACGCAGTCTCCACCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGCGCCAGTCAGAGTGTTAGCAGCAACTTAGACTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCACCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAAGAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCAGTCTCTCCTGCAGGGCCAGTCAGAGTGTTACCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACCGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGCTGGACGTTCGGCCAAGGGACCAAGATGGAAATCAAAC", "GAAATAGTGATGGCGCAGTCTCCAGCCATCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAAGGCCAGTCAGAGTGTTTGCAACAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCATGGCCACTGGAATCCCAGCCAGGTTCAGTGGCAGTGCGTCTGGGACAGAGTTCACTGTCACCATCAACAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCATCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTATTAACAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCGAGCCAGGTTCAGTGGCAGTGAGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGCTGGACGTTCGGCCAAGGGACCAACGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCGGCCACCCTGTCTGTGTCTCCGGGGGAAAGAGCCAGCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGCTGGACGTTCGGCCAAGGGACTAAGGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCACCCACCCTGTCTGTGTCTCCAGGGGAAAGACCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGTCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCACCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCCAGAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC"], "naive_seq": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "duplicates": [[], [], [], [], [], []], "v_3p_del": 6, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [false, false, false, false, false, false], "paired-uids": [["2d29c65222-igh", "2d29c65222-igl", "96f6ea6b59-igh"], ["57810cb714-igh"], ["da88a0f870-igh"], ["962cf676f9-igh"], ["8abdecedf6-igh"], ["f9494fc130-igh"]], "loci": ["igk", "igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 288}}, {"qr_gap_seqs": ["", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", ""], "reco_id": "ca482b4daf", "tree": "[&R] ((7e90b4242e-igk:-0.0,(((14e4ff3a6a-igk:-0.0,(810f8f7056-igk:-0.0,816fc82f73-igk:-0.0)ghw:-0.0)ghn:-0.0,8a4877bbfc-igk:-0.0)ehr:-0.0,(047be6c743-igk:-0.0,(964f9e33e6-igk:-0.0,997456da00-igk:-0.0)kns:-0.0)kpv:-0.0)jux:-0.0)egh:-0.0)hmv:0.0;", "unique_ids": ["816fc82f73-igk", "810f8f7056-igk", "997456da00-igk", "047be6c743-igk", "8a4877bbfc-igk", "7e90b4242e-igk", "964f9e33e6-igk", "14e4ff3a6a-igk"], "invalid": false, "v_gene": "IGKV3-11*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ4*01", "cdr3_length": 36, "mut_freqs": [0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0], "n_mutations": [0, 0, 0, 0, 0, 0, 0, 0], "input_seqs": ["GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "has_shm_indels": [false, false, false, false, false, false, false, false], "naive_seq": "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "duplicates": [[], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true], "stops": [false, false, false, false, false, false, false, false], "paired-uids": [["816fc82f73-igh"], ["810f8f7056-igh", "da96f2c471-igh", "da96f2c471-igl"], ["94040b8e55-igh", "94040b8e55-igl", "997456da00-igh"], ["047be6c743-igh"], [], ["7e90b4242e-igh"], [], ["14e4ff3a6a-igh"]], "loci": ["igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 294}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "8ff5ec4520", "tree": "[&R] (5b83db58bc-igk:-0.0)alx:0.0;", "unique_ids": ["5b83db58bc-igk"], "invalid": false, "v_gene": "IGKV3-15*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ1*01", "cdr3_length": 30, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC"], "has_shm_indels": [false], "naive_seq": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "duplicates": [[]], "v_3p_del": 6, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["0e191a1e72-igh", "5b83db58bc-igh"]], "loci": ["igk"], "codon_positions": {"v": 261, "j": 288}}, {"has_shm_indels": [false, false, true, false, false], "qr_gap_seqs": ["", "", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCC...GGACCAAAGTGGATATCAAAC", "", ""], "gl_gap_seqs": ["", "", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "", ""], "indel_reversed_seqs": ["", "", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "", ""], "reco_id": "6564755f20", "tree": "[&R] ((7bfd25e622-igk:0.0015848863081747064,(((dde37df0f3-igk:0.0001364902677696193,(42584a044c-igk:1.5282355027325288e-06,ceb855766e-igk:1.5282355027325288e-06)kpq:0.00013496203224876356)egm:0.00031270976494861215,638b01f2ff-igk:0.000449200032659134)lwy:0.0008174848805471554,dc03113497-igk:0.0012666849132062894)gix:0.00031820139477142556)dku:0.0010652931279492913)mrx:0.0;", "unique_ids": ["dde37df0f3-igk", "ceb855766e-igk", "638b01f2ff-igk", "42584a044c-igk", "7bfd25e622-igk"], "invalid": false, "v_gene": "IGKV1-12*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ3*01", "cdr3_length": 33, "mut_freqs": [0.0, 0.0, 0.0, 0.0, 0.006211180124223602], "n_mutations": [0, 0, 0, 0, 2], "input_seqs": ["GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATGACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCACCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC"], "naive_seq": "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "duplicates": [[], [], [], [], []], "v_3p_del": 2, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 1, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false], "in_frames": [true, true, true, true, true], "stops": [false, false, false, false, false], "paired-uids": [["88ea4d6f94-igh", "dde37df0f3-igh"], ["ceb855766e-igh"], ["638b01f2ff-igh"], ["42584a044c-igh"], ["7bfd25e622-igh", "f74e482a75-igh", "f74e482a75-igl"]], "loci": ["igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 291}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "b2144fab8e", "tree": "[&R] (a1f869b08f-igk:-0.0)aeh:0.0;", "unique_ids": ["a1f869b08f-igk"], "invalid": false, "v_gene": "IGKV3-15*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ1*01", "cdr3_length": 30, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC"], "has_shm_indels": [false], "naive_seq": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "duplicates": [[]], "v_3p_del": 6, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["02c4dcf740-igh", "02c4dcf740-igl", "a1f869b08f-igh"]], "loci": ["igk"], "codon_positions": {"v": 261, "j": 288}}, {"qr_gap_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAA..AGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "gl_gap_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "indel_reversed_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "reco_id": "182e588062", "tree": "[&R] (626eeaeec5-igk:-0.0)bwx:0.0;", "unique_ids": ["626eeaeec5-igk"], "invalid": false, "v_gene": "IGKV4-1*02", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ4*01", "cdr3_length": 33, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAAAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "has_shm_indels": [true], "naive_seq": "GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "duplicates": [[]], "v_3p_del": 4, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 1, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [false], "stops": [true], "paired-uids": [["626eeaeec5-igh", "c022154f42-igh"]], "loci": ["igk"], "codon_positions": {"v": 279, "j": 309}}, {"has_shm_indels": [false, false, false, false, false, true, true, false, false, true], "qr_gap_seqs": ["", "", "", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCT...TCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAACGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCGCTTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAG...ACCAAGCTGGAGATCAAAC", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGATAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "gl_gap_seqs": ["", "", "", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAA.GCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATC...TGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAA....GTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCA..GAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "indel_reversed_seqs": ["", "", "", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "reco_id": "d217d13f25", "tree": "[&R] (((475a17c3bd-igk:0.002181809866926833,((9cfd60a4c8-igk:4.808693186930687e-05,bc72018f26-igk:4.808693186930687e-05)uvy:0.001075028096064484,((7713c8e94f-igk:0.0006432130249391569,feeff50eb0-igk:0.0006432130249391569)gpw:0.0003532399791817882,(cb9b787bf3-igk:0.0008627431930505676,((90bc43bbe6-igk:4.754190393330125e-05,9b1977f91e-igk:4.754190393330125e-05)pwz:1.8298332096787258e-05,99ec3a50a4-igk:6.584023602220886e-05)hnq:0.0007969029571662528)hlv:0.00013370981097188177)lqu:0.00012666202385224425)efv:0.0010586948390718391)gly:0.0003500741565651919,((6a1829447f-igk:0.0016565285587750195,2f6c99db02-igk:0.0016565285587750195)eoq:0.0006969621677001058,(2e42f5c485-igk:2.5136884154195087e-05,d7b2f887dc-igk:2.5136884154195087e-05)apr:0.002328353841749655)opr:0.00017839329719419227)pqv:0.00011829541245525619)cuy:0.0;", "unique_ids": ["7713c8e94f-igk", "2e42f5c485-igk", "feeff50eb0-igk", "cb9b787bf3-igk", "2f6c99db02-igk", "6a1829447f-igk", "d7b2f887dc-igk", "99ec3a50a4-igk", "475a17c3bd-igk", "9cfd60a4c8-igk"], "invalid": false, "v_gene": "IGKV1D-39*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ2*03", "cdr3_length": 36, "mut_freqs": [0.003076923076923077, 0.0, 0.0, 0.0, 0.006153846153846154, 0.003076923076923077, 0.0, 0.003076923076923077, 0.0, 0.0], "n_mutations": [1, 0, 0, 0, 2, 1, 0, 1, 0, 0], "input_seqs": ["GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCACCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAATACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTTCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAACGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCGCTTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCATGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGATAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "naive_seq": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "duplicates": [[], [], [], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 1, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, false, true, true, true, true], "stops": [false, false, false, false, false, true, false, false, false, true], "paired-uids": [["7713c8e94f-igh"], ["2e42f5c485-igh"], ["feeff50eb0-igh"], ["cb9b787bf3-igh"], ["2f6c99db02-igh"], ["6a1829447f-igh"], ["d7b2f887dc-igh"], ["3de3240f4c-igh", "3de3240f4c-igl", "99ec3a50a4-igh"], ["475a17c3bd-igh", "4e6de5d38d-igh", "4e6de5d38d-igl"], ["9cfd60a4c8-igh"]], "loci": ["igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 294}}]}
test/paired/new-results/test/simu/igh+igl/igh.yaml ADDED
@@ -0,0 +1 @@
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV1-18*01": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-2*02": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-46*03": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTTTCCTGCAAGGCATCTGGATACACCTTCACCAGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAATAATCAACCCTAGTGGTGGTAGCACAAGCTACGCACAGAAGTTCCAGGGCAGAGTCACCATGACCAGGGACACGTCCACGAGCACAGTCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCTAGAGA", "IGHV1-69*04": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-8*01": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCAGTTATGATATCAACTGGGTGCGACAGGCCACTGGACAAGGGCTTGAGTGGATGGGATGGATGAACCCTAACAGTGGTAACACAGGCTATGCACAGAAGTTCCAGGGCAGAGTCACCATGACCAGGAACACCTCCATAAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGG", "IGHV2-5*02": "CAGATCACCTTGAAGGAGTCTGGTCCTACGCTGGTGAAACCCACACAGACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACCATCACCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACATATTACTGTGCACACAGAC", "IGHV2-70*01": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATAC", "IGHV3-11*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV3-15*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTAAAGCCTGGGGGGTCCCTTAGACTCTCCTGTGCAGCCTCTGGATTCACTTTCAGTAACGCCTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTGGCCGTATTAAAAGCAAAACTGATGGTGGGACAACAGACTACGCTGCACCCGTGAAAGGCAGATTCACCATCTCAAGAGATGATTCAAAAAACACGCTGTATCTGCAAATGAACAGCCTGAAAACCGAGGACACAGCCGTGTATTACTGTACCACAGA", "IGHV3-20*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGTGTGGTACGGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTGATGATTATGGCATGAGCTGGGTCCGCCAAGCTCCAGGGAAGGGGCTGGAGTGGGTCTCTGGTATTAATTGGAATGGTGGTAGCACAGGTTATGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCCCTGTATCTGCAAATGAACAGTCTGAGAGCCGAGGACACGGCCTTGTATCACTGTGCGAGAGA", "IGHV3-21*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCCTGGTCAAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATAGCATGAACTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCATCCATTAGTAGTAGTAGTAGTTACATATACTACGCAGACTCAGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-23*01": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGA", "IGHV3-30*04": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATGCTATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATCATATGATGGAAGTAATAAATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-33*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-48*02": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATAGCATGAACTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTAGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAATGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGACGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-66*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCAGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-74*01": "GAGGTGCAGCTGGTGGAGTCCGGGGGAGGCTTAGTTCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTACTGGATGCACTGGGTCCGCCAAGCTCCAGGGAAGGGGCTGGTGTGGGTCTCACGTATTAATAGTGATGGGAGTAGCACAAGCTACGCGGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACACGCTGTATCTGCAAATGAACAGTCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCAAGAGA", "IGHV3-9*01": "GAAGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGCAGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTGATGATTATGCCATGCACTGGGTCCGGCAAGCTCCAGGGAAGGGCCTGGAGTGGGTCTCAGGTATTAGTTGGAATAGTGGTAGCATAGGCTATGCGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCCCTGTATCTGCAAATGAACAGTCTGAGAGCTGAGGACACGGCCTTGTATTACTGTGCAAAAGATA", "IGHV4-31*03": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCACAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGCCAGCACCCAGGGAAGGGCCTGGAGTGGATTGGGTACATCTATTACAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTTACCATATCAGTAGACACGTCTAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACTGCCGCGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-39*01": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACA", "IGHV4-4*02": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGGGACCCTGTCCCTCACCTGCGCTGTCTCTGGTGGCTCCATCAGCAGTAGTAACTGGTGGAGTTGGGTCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGGAAATCTATCATAGTGGGAGCACCAACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCAGTAGACAAGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-59*11": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGTAGTCACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGA"}, "d": {"IGHD1-1*01": "GGTACAACTGGAACGAC", "IGHD1-14*01": "GGTATAACCGGAACCAC", "IGHD1-20*01": "GGTATAACTGGAACGAC", "IGHD1-26*01": "GGTATAGTGGGAGCTACTAC", "IGHD1-7*01": "GGTATAACTGGAACTAC", "IGHD2-15*01": "AGGATATTGTAGTGGTGGTAGCTGCTACTCC", "IGHD2-21*01": "AGCATATTGTGGTGGTGATTGCTATTCC", "IGHD3-10*01": "GTATTACTATGGTTCGGGGAGTTATTATAAC", "IGHD3-16*03": "GTATTATGATTACATTTGGGGGAGTTATCGTTATACC", "IGHD3-22*01": "GTATTACTATGATAGTAGTGGTTATTACTAC", "IGHD3-3*01": "GTATTACGATTTTTGGAGTGGTTATTATACC", "IGHD3-9*01": "GTATTACGATATTTTGACTGGTTATTATAAC", "IGHD4-17*01": "TGACTACGGTGACTAC", "IGHD5-24*01": "GTAGAGATGGCTACAATTAC", "IGHD6-13*01": "GGGTATAGCAGCAGCTGGTAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC", "IGHD6-6*01": "GAGTATAGCAGCTCGTCC", "IGHD7-27*01": "CTAACTGGGGA"}, "j": {"IGHJ1*01": "GCTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "IGHJ2*01": "CTACTGGTACTTCGATCTCTGGGGCCGTGGCACCCTGGTCACTGTCTCCTCAG", "IGHJ3*02": "TGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG", "IGHJ4*02": "ACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ5*02": "ACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ6*02": "ATTACTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"}}, "cyst-positions": {"IGHV1-69*04": 285, "IGHV3-74*01": 285, "IGHV2-5*02": 288, "IGHV4-59*11": 282, "IGHV3-9*01": 285, "IGHV1-2*02": 285, "IGHV3-33*01": 285, "IGHV3-21*01": 285, "IGHV2-70*01": 288, "IGHV1-18*01": 285, "IGHV4-31*03": 288, "IGHV3-7*01": 285, "IGHV3-11*01": 285, "IGHV3-30*04": 285, "IGHV3-66*01": 282, "IGHV1-8*01": 285, "IGHV4-39*01": 288, "IGHV1-46*03": 285, "IGHV3-23*01": 285, "IGHV3-15*01": 291, "IGHV3-20*01": 285, "IGHV3-48*02": 285, "IGHV4-4*02": 285}, "tryp-positions": {"IGHJ4*02": 14, "IGHJ2*01": 19, "IGHJ3*02": 16, "IGHJ6*02": 29, "IGHJ5*02": 17, "IGHJ1*01": 18}}, "partitions": [{"logprob": 0.0, "n_clusters": 3, "n_procs": 1, "partition": [["83cd33d783-igh", "24174ebdc9-igh", "da96f2c471-igh", "2d29c65222-igh", "f74e482a75-igh", "c022154f42-igh", "0e191a1e72-igh", "02c4dcf740-igh", "4e6de5d38d-igh"], ["3de3240f4c-igh", "88ea4d6f94-igh"], ["94040b8e55-igh"]]}], "events": [{"has_shm_indels": [false, true, false, false, true, false, false, false, false], "qr_gap_seqs": ["", "CAAGTGCAGCTGGTGCAGTCTGGGGGAGGCTTGATCAAGCCTCAAAGCCCCCTGAAACTCTTCTGCGCAGTCTCTGGATTCACCTTCGGTGACTAGTGCATTAGCTGGATCCCCCCGACTCCAGGAATAGGGCTGGAGTCGGTTTCATACATTATTAGTAGTGGTGGTTCCATGTAC....CAGATTCTGTGAAGGGCCGATTCACCATCTCTAGGGACAATGGCAAGAACTCACTATATCTGTAAATGAACAGCCCGAGAGCCGAGAACACGGCCATGTGTTACTGTGCGAGAGACTTAGATGTATTGTACTAGCTCTTTGATTACTGGGGCTAGGGAACCCTGGTGACCGTCTCCTCGG", "", "", "CAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTCTGCAGCTTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCAGGGATGGGGCTGAAGTGGATTTCATACATTATTAGTAGTAG.AGTTCCATAGGCATCGCACACTCTGTGAAAGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGGGAGATCTTCTTGTCTGCTGGCGTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCGG", "", "", "", ""], "gl_gap_seqs": ["", "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACCAGCCTAACTGGGGCTGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACCAGCCTAACTGGGGCTGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", "", ""], "indel_reversed_seqs": ["", "CAAGTGCAGCTGGTGCAGTCTGGGGGAGGCTTGATCAAGCCTCAAAGCCCCCTGAAACTCTTCTGCGCAGTCTCTGGATTCACCTTCGGTGACTAGTGCATTAGCTGGATCCCCCCGACTCCAGGAATAGGGCTGGAGTCGGTTTCATACATTATTAGTAGTGGTGGTTCCATGTACTTCGCAGATTCTGTGAAGGGCCGATTCACCATCTCTAGGGACAATGGCAAGAACTCACTATATCTGTAAATGAACAGCCCGAGAGCCGAGAACACGGCCATGTGTTACTGTGCGAGAGACTTAGATGTATTGTACTAGCTCTTTGATTACTGGGGCTAGGGAACCCTGGTGACCGTCTCCTCGG", "", "", "CAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTCTGCAGCTTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCAGGGATGGGGCTGAAGTGGATTTCATACATTATTAGTAGTAGTAGTTCCATAGGCATCGCACACTCTGTGAAAGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGGGAGATCTTCTTGTCTGCTGGCGTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCGG", "", "", "", ""], "reco_id": "e707c96016", "tree": "[&R] ((((((4e6de5d38d-igh:0.07209171405096904,c022154f42-igh:0.07209171405096904)bej:0.0024877365972909237,da96f2c471-igh:0.07457945064715434)gju:0.05417182866516069,(83cd33d783-igh:0.031233929838579148,(8828e95dd5-igh:0.019064437781166208,f74e482a75-igh:0.019064437781166208)gqw:0.01216949206846909)dlt:0.09751734947373586)gko:0.003203735701746465,24174ebdc9-igh:0.13195501502732887)uwz:0.008836455136563368,(0e191a1e72-igh:0.12141378956210414,(2d29c65222-igh:0.11552578370357505,02c4dcf740-igh:0.11552578370357505)ovz:0.005888005816515696)hko:0.01937768060510495)htz:0.007949953454340257)emp:0.0;", "unique_ids": ["83cd33d783-igh", "24174ebdc9-igh", "da96f2c471-igh", "2d29c65222-igh", "f74e482a75-igh", "c022154f42-igh", "0e191a1e72-igh", "02c4dcf740-igh", "4e6de5d38d-igh"], "invalid": false, "v_gene": "IGHV3-11*01", "d_gene": "IGHD7-27*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.1523545706371191, 0.15789473684210525, 0.13850415512465375, 0.13850415512465375, 0.14127423822714683, 0.1883656509695291, 0.10526315789473684, 0.12465373961218837, 0.16066481994459833], "n_mutations": [55, 57, 50, 50, 51, 68, 38, 45, 58], "input_seqs": ["CAGCTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTGTGCGGCCTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCGGGGATAGGGCTGAAGTGGATTTCATACATTATTAGTAGTAGTATTTCCATAGGCATCGCAGAATGTGTGAAGGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGAGAGATCTTCTTCTCTGCACGCCTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCCG", "CAAGTGCAGCTGGTGCAGTCTGGGGGAGGCTTGATCAAGCCTCAAAGCCCCCTGAAACTCTTCTGCGCAGTCTCTGGATTCACCTTCGGTGACTAGTGCATTAGCTGGATCCCCCCGACTCCAGGAATAGGGCTGGAGTCGGTTTCATACATTATTAGTAGTGGTGGTTCCATGTACCAGATTCTGTGAAGGGCCGATTCACCATCTCTAGGGACAATGGCAAGAACTCACTATATCTGTAAATGAACAGCCCGAGAGCCGAGAACACGGCCATGTGTTACTGTGCGAGAGACTTAGATGTATTGTACTAGCTCTTTGATTACTGGGGCTAGGGAACCCTGGTGACCGTCTCCTCGG", "CAGGTGCAGCTGGTGGTGTCTGGGGGAACCTTGATCAAGCCTGAAGGGCGCCTGAAATTCTCCTGCGCAGCCTCTGGATTCACCTTCAGTGATTAGTACATGAACTGGATCCGCCAGGCTGCACAGATGTGGCTGGACTGGGTTTCATACATTATTAGTAGTGGTAGTACCATATACTTCCCACACTCTGTGAAGGGCCGAATCATCATCTCCAGGGACAACAGCAAGAACTCACTCTATCTGCAAATGAACAGCCCGAGTGTCGAGGACACGGCCGTGTATTACTGTGAGAGGGATAATTTTCATTGCCGATACTGCTCTGACTATTGGGGCCAGGGAACGCTGGTCACCGTCACCTCGG", "CAGGTGCAGCTGGTGGAATCTGGGGAAGGCTTGGTTAAGCCTGGAGGGCCCCTGGGACTCTCCTCTACAATCTGTGGATTTACCTTCAGTTACTACTACATGAGCTGGATCGGCCAGGCTTCAGGGAAGGGGCTCGAGTGAGTTTCATACATTATTAGTTCTGATAGTCCCCTCTACTTCGCACACTCCGTGAAGAGCCGATTCACCGTCTCCAGGGACAATGCCAAGAACTCACTGTATGTCCAAATGAACAGATGGAGTGCCGAGGACACGGCCGTGTATTACTGTGCGGCGGACCACCGTCAACAGAGTAACTCCTTTGACTACTGGGGCCAGGGAACACTGGTCACCGTCTCCTCGG", "CAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTCTGCAGCTTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCAGGGATGGGGCTGAAGTGGATTTCATACATTATTAGTAGTAGAGTTCCATAGGCATCGCACACTCTGTGAAAGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGGGAGATCTTCTTGTCTGCTGGCGTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCGG", "CAGGTGCACCTGGTGATGTTTGGCGCAGGCTTGATCAAGCCTGAAGGGCGCCTGAAACTCTCCCGCGCAGCCTCTGGACTCACCTTCATTGATTAGTTCGTGAGCTGGATCCGCCAGGCTGCAGAGGTCTGGCTGGACTGGGTTTCATACATTATTAGTAGTGGTACTACCATATACTTCGCACACTCTGTGAAGGGCCGATCCATCATCTCCAAGGACAACGCCAACAAGTCAGTCTATCTGCAAGTGAACAGCCCGAGTGTCGAGGACACGGCCGTGTTTGACTGTGCGGGAGGTAGTCATCTCGTGACTTCGGGCTCTGACTTCTGGGGCCAGGGAACGCTGGTCAGCGTCACTTCGG", "CAGGTGCAGCTGGTCTAGTCTGAGGGAGGGTTGGTCAAGCCTGGAGGGCCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCGCCTTCAGTGACTGCCACATGAGCTGGATCCGCCAGACTCCAGGGAAGAGGCTAGAGTGGGTTTCATACATTATTAGTAGTGGTAGTACCCTATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAAGGCCAAGAACTCACTGTATCTGTAAATGAACGGGCCGAGTGCCGAGGACATGTCCGTGTATTACTGTGCGAAAGACTTCCCCGGGTCCCGCTCGTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCGCCGTTTCCTTTG", "CAGGTGTGACTGGTAGAGTCTCGGGGAGGCTTGGTCAAGCCTAAAGGGCCCCTGAGACTCTCCTGTGTAGCCTCTGGATTCACCTTCAATGACTACTACGTGAGCTGGATCCCCCAGGCTCCAGGGAAAGGGTTGGAGTGGGTTTCATACGTTACTAGATCTGGTAGTACCCTATACTACGCTGACTCTGTGATGGGCGGATTCGCCATCTCCAGGAACAACGCTAAGAACTCACTGTATCTGCAAATGAACAGCCCGAGAGCCGAGGACACGGCCGTATATTAATGTGCGCGAAATCTTCCTTACTGAATTTCCTTCTTTGACTACTGGGGCTAGGGAACCCTGGTCACCGTCCCTTCGG", "CGGATGCAGCTGGTGGTGCCTCGGGGAAGCTTGATCAAGCCTGAAGGGCGCCTGAAACTCTCCTGCGCAGCCTCTGGATTCACCTTCAGTGATTAGTACATGAGCTGGATCTGCCTGGCTGCAGAGATGTGGCTGGACTGGGTTTCATACATTATTGGTAGTGGTAGTAGCATATACTTCGCACACTCTGTGAGTGGCCTATCCATCATCTCCAGGGACAACGCCAAGAGCTCAGTGTATCTGCAAATGAACAGCCCGAGTGTCGAGGACACGGGCGTGTATTACTGTGCGAGAGAAACTCTTCTCCTATTTTCCTCCTCTAACTACTGGGGCTAGGGAACGCCGGTCACCGTCGCCTCGG"], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACCAGCCTAACTGGGGCTGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 0, "d_3p_del": 1, "j_5p_del": 4, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCAGC", "dj_insertion": "CTGCTC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false], "in_frames": [true, false, true, true, false, true, true, true, true], "stops": [true, true, true, true, true, true, true, true, true], "paired-uids": [["83cd33d783-igl"], ["24174ebdc9-igl", "8828e95dd5-igl"], ["810f8f7056-igh", "810f8f7056-igk", "da96f2c471-igl"], ["2d29c65222-igl", "96f6ea6b59-igh", "96f6ea6b59-igk"], ["7bfd25e622-igh", "7bfd25e622-igk", "f74e482a75-igl"], ["626eeaeec5-igh", "626eeaeec5-igk"], ["5b83db58bc-igh", "5b83db58bc-igk"], ["02c4dcf740-igl", "a1f869b08f-igh", "a1f869b08f-igk"], ["475a17c3bd-igh", "475a17c3bd-igk", "4e6de5d38d-igl"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 327}}, {"qr_gap_seqs": ["GAGGTGCAGCTGTTGGGGTCTGGCGGAAGCTTGGTACAG.....GGGCCTCCTGAGACTCTCCTGCTCAGCCTCTGGACTCAACTTTAGTAGCCATACCATGAGCTGGGTCCGCCAGGGTCCAGGAAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAAACTCTGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAAGAACACGCCATATCTGCAGATGAACAGCCTCGGAGCCGAGGACACGGACCTATATTACTGTGGGAAAGATCTGAGGGAGGCGTTCCGTTACTTTGGCTATTGGGCCCAGGGAACCCTGGTCACCGTCTCCCCAG", "GGGCTGCAGCTGTTGGAGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCTCCCTGAAACTCTCCTCTTCAGCCTCTGGATTCAGTTTTAGCAGCCATGCCACGAGCTGGGTCCGCCAGCGTCCAGGGAAGGGACTG..................AGTGGCAGTGGTGGTAGCACATACTACGTACACTCCGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAGGAACACGCCGTATCTGCAGATGAACAGCTTGCGAGCCAAGGACACGGACCTATATTACTGTGGGAAAGATTCGCCATCGCTCTTCAGTTGCTTTGGCTATTGGGGCCAGGGAACCCTGGTCACCGTCTCCCCAG"], "gl_gap_seqs": ["GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGACTCAGCACGGCTGGTGAATTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGACTCAGCACGGCTGGTGAATTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["GAGGTGCAGCTGTTGGGGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCCTCCTGAGACTCTCCTGCTCAGCCTCTGGACTCAACTTTAGTAGCCATACCATGAGCTGGGTCCGCCAGGGTCCAGGAAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAAACTCTGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAAGAACACGCCATATCTGCAGATGAACAGCCTCGGAGCCGAGGACACGGACCTATATTACTGTGGGAAAGATCTGAGGGAGGCGTTCCGTTACTTTGGCTATTGGGCCCAGGGAACCCTGGTCACCGTCTCCCCAG", "GGGCTGCAGCTGTTGGAGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCTCCCTGAAACTCTCCTCTTCAGCCTCTGGATTCAGTTTTAGCAGCCATGCCACGAGCTGGGTCCGCCAGCGTCCAGGGAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGCAGTGGTGGTAGCACATACTACGTACACTCCGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAGGAACACGCCGTATCTGCAGATGAACAGCTTGCGAGCCAAGGACACGGACCTATATTACTGTGGGAAAGATTCGCCATCGCTCTTCAGTTGCTTTGGCTATTGGGGCCAGGGAACCCTGGTCACCGTCTCCCCAG"], "reco_id": "dd76478982", "tree": "[&R] ((88ea4d6f94-igh:0.07199919300546116,3de3240f4c-igh:0.07199919300546116)qtx:0.08648262724494404)ivw:0.0;", "unique_ids": ["3de3240f4c-igh", "88ea4d6f94-igh"], "invalid": false, "v_gene": "IGHV3-23*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.13573407202216067, 0.12188365650969529], "n_mutations": [49, 44], "input_seqs": ["GAGGTGCAGCTGTTGGGGTCTGGCGGAAGCTTGGTACAGGGGCCTCCTGAGACTCTCCTGCTCAGCCTCTGGACTCAACTTTAGTAGCCATACCATGAGCTGGGTCCGCCAGGGTCCAGGAAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAAACTCTGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAAGAACACGCCATATCTGCAGATGAACAGCCTCGGAGCCGAGGACACGGACCTATATTACTGTGGGAAAGATCTGAGGGAGGCGTTCCGTTACTTTGGCTATTGGGCCCAGGGAACCCTGGTCACCGTCTCCCCAG", "GGGCTGCAGCTGTTGGAGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCTCCCTGAAACTCTCCTCTTCAGCCTCTGGATTCAGTTTTAGCAGCCATGCCACGAGCTGGGTCCGCCAGCGTCCAGGGAAGGGACTGAGTGGCAGTGGTGGTAGCACATACTACGTACACTCCGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAGGAACACGCCGTATCTGCAGATGAACAGCTTGCGAGCCAAGGACACGGACCTATATTACTGTGGGAAAGATTCGCCATCGCTCTTCAGTTGCTTTGGCTATTGGGGCCAGGGAACCCTGGTCACCGTCTCCCCAG"], "has_shm_indels": [true, true], "naive_seq": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGACTCAGCACGGCTGGTGAATTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "v_3p_del": 0, "d_5p_del": 12, "d_3p_del": 3, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTCAGCAC", "dj_insertion": "TGAAT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [false, true], "stops": [true, false], "paired-uids": [["3de3240f4c-igl", "99ec3a50a4-igh", "99ec3a50a4-igk"], ["dde37df0f3-igh", "dde37df0f3-igk"]], "loci": ["igh", "igh"], "codon_positions": {"v": 285, "j": 327}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "da8c9d16ae", "tree": "[&R] (94040b8e55-igh:0.11407138548387172)gko:0.0;", "unique_ids": ["94040b8e55-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD1-7*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.08587257617728532], "n_mutations": [31], "input_seqs": ["CAGGTCCAGCCGGTGCAGTCTCGGGCTGACGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCTCCTTCAGAAGCTATGCTATCAGCTGGGTACGACAGACCCCTGGACAAGGCTTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACACACAGCAGTTCCAGGGCAAAGTCACGGTTACCGCGGACAGATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGGTCTGAGGACACCGCCGTGTATTACTGTGCGAGAGAGACTATCCCCGGTAACTCATTGCAATTCTACTGGGGCCAGAGAACCCTGGTCACCGCCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGAGGCTATCCGCACTAACTGGAACTACCCCTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 0, "d_5p_del": 4, "d_3p_del": 0, "j_5p_del": 10, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GGCTATCCGCAC", "dj_insertion": "CC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["94040b8e55-igl", "997456da00-igh", "997456da00-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 327}}]}
test/paired/new-results/test/simu/igh+igl/igl.yaml ADDED
@@ -0,0 +1 @@
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igl", "functionalities": {}, "seqs": {"v": {"IGLV1-40*01": "CAGTCTGTGCTGACGCAGCCGCCCTCAGTGTCTGGGGCCCCAGGGCAGAGGGTCACCATCTCCTGCACTGGGAGCAGCTCCAACATCGGGGCAGGTTATGATGTACACTGGTACCAGCAGCTTCCAGGAACAGCCCCCAAACTCCTCATCTATGGTAACAGCAATCGGCCCTCAGGGGTCCCTGACCGATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCACTGGGCTCCAGGCTGAGGATGAGGCTGATTATTACTGCCAGTCCTATGACAGCAGCCTGAGTGGTTC", "IGLV1-51*02": "CAGTCTGTGTTGACGCAGCCGCCCTCAGTGTCTGCGGCCCCAGGACAGAAGGTCACCATCTCCTGCTCTGGAAGCAGCTCCAACATTGGGAATAATTATGTATCCTGGTACCAGCAGCTCCCAGGAACAGCCCCCAAACTCCTCATCTATGAAAATAATAAGCGACCCTCAGGGATTCCTGACCGATTCTCTGGCTCCAAGTCTGGCACGTCAGCCACCCTGGGCATCACCGGACTCCAGACTGGGGACGAGGCCGATTATTACTGCGGAACATGGGATAGCAGCCTGAGTGCTGG", "IGLV2-14*04": "CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGACGTTGGTGGTTATAACTATGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGATGTCAGTAATCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACCATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCAGCTCATATACAAGCAGCAGCACTCTC", "IGLV2-23*02": "CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGATGTTGGGAGTTATAACCTTGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGAGGTCAGTAAGCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACAATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCTGCTCATATGCAGGTAGTAGCACTTTC", "IGLV3-1*01": "TCCTATGAGCTGACTCAGCCACCCTCAGTGTCCGTGTCCCCAGGACAGACAGCCAGCATCACCTGCTCTGGAGATAAATTGGGGGATAAATATGCTTGCTGGTATCAGCAGAAGCCAGGCCAGTCCCCTGTGCTGGTCATCTATCAAGATAGCAAGCGGCCCTCAGGGATCCCTGAGCGATTCTCTGGCTCCAACTCTGGGAACACAGCCACTCTGACCATCAGCGGGACCCAGGCTATGGATGAGGCTGACTATTACTGTCAGGCGTGGGACAGCAGCACTGCA", "IGLV3-19*01": "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCACATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACTATTACTGTAACTCCCGGGACAGCAGTGGTAACCATCT", "IGLV3-27*01": "TCCTATGAGCTGACACAGCCATCCTCAGTGTCAGTGTCTCCGGGACAGACAGCCAGGATCACCTGCTCAGGAGATGTACTGGCAAAAAAATATGCTCGGTGGTTCCAGCAGAAGCCAGGCCAGGCCCCTGTGCTGGTGATTTATAAAGACAGTGAGCGGCCCTCAGGGATCCCTGAGCGATTCTCCGGCTCCAGCTCAGGGACCACAGTCACCTTGACCATCAGCGGGGCCCAGGTTGAGGATGAGGCTGACTATTACTGTTACTCTGCGGCTGACAACAATCT", "IGLV4-60*03": "CAGCCTGTGCTGACTCAATCATCCTCTGCCTCTGCTTCCCTGGGATCCTCGGTCAAGCTCACCTGCACTCTGAGCAGTGGGCACAGTAGCTACATCATCGCATGGCATCAGCAGCAGCCAGGGAAGGCCCCTCGGTACTTGATGAAGCTTGAAGGTAGTGGAAGCTACAACAAGGGGAGCGGAGTTCCTGATCGCTTCTCAGGCTCCAGCTCTGGGGCTGACCGCTACCTCACCATCTCCAACCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGAGACCTGGGACAGTAACACTCA", "IGLV7-46*04": "CAGGCTGTGGTGACTCAGGAGCCCTCACTGACTGTGTCCCCAGGAGGGACAGTCACTCTCACCTGTGGCTCCAGCACTGGAGCTGTCACCAGTGGTCATTATCCCTACTGGTTCCAGCAGAAGCCTGGCCAAGCCCCCAGGACACTGATTTATGATACAAGCAACAAACACTCCTGGACCCCTGCCCGGTTCTCAGGCTCCCTCCTTGGGGGCAAAGCTGCCCTGACCCTTTCGGGTGCGCAGCCTGAGGATGAGGCTGAGTATTACTGCTTGCTCTCCTATAGTGGTGCTCGG", "IGLV8-61*01": "CAGACTGTGGTGACCCAGGAGCCATCGTTCTCAGTGTCCCCTGGAGGGACAGTCACACTCACTTGTGGCTTGAGCTCTGGCTCAGTCTCTACTAGTTACTACCCCAGCTGGTACCAGCAGACCCCAGGCCAGGCTCCACGCACGCTCATCTACAGCACAAACACTCGCTCTTCTGGGGTCCCTGATCGCTTCTCTGGCTCCATCCTTGGGAACAAAGCTGCCCTCACCATCACGGGGGCCCAGGCAGATGATGAATCTGATTATTACTGTGTGCTGTATATGGGTAGTGGCATTTC"}, "d": {"IGLDx-x*x": "A"}, "j": {"IGLJ1*01": "TTATGTCTTCGGAACTGGGACCAAGGTCACCGTCCTAG", "IGLJ2*01": "TGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "IGLJ3*02": "TTGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG"}}, "cyst-positions": {"IGLV8-61*01": 267, "IGLV2-14*04": 267, "IGLV4-60*03": 273, "IGLV2-23*02": 267, "IGLV1-40*01": 267, "IGLV3-1*01": 258, "IGLV1-51*02": 264, "IGLV7-46*04": 267, "IGLV3-27*01": 258, "IGLV3-19*01": 258}, "phen-positions": {"IGLJ1*01": 7, "IGLJ2*01": 7, "IGLJ3*02": 7}}, "partitions": [{"logprob": 0.0, "n_clusters": 3, "n_procs": 1, "partition": [["83cd33d783-igl", "24174ebdc9-igl", "da96f2c471-igl", "2d29c65222-igl", "8828e95dd5-igl", "f74e482a75-igl", "02c4dcf740-igl", "4e6de5d38d-igl"], ["3de3240f4c-igl"], ["94040b8e55-igl"]]}], "events": [{"has_shm_indels": [false, false, false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", ""], "reco_id": "e707c96016", "tree": "[&R] ((((((4e6de5d38d-igl:0.014385310579532198,c022154f42-igl:0.014385310579532198)gis:0.0004964074451995572,da96f2c471-igl:0.014881718024511137)bkm:0.010809544345950627,(83cd33d783-igl:0.006232474664558756,(8828e95dd5-igl:0.0038041522818052244,f74e482a75-igl:0.0038041522818052244)mos:0.002428322384959696)ags:0.019458787705903004)iqr:0.0006392791972150224,24174ebdc9-igl:0.026330541570324183)ahz:0.0017632421871908318,(0e191a1e72-igl:0.024227126438608457,(2d29c65222-igl:0.02305222313544712,02c4dcf740-igl:0.02305222313544712)efn:0.0011749032947779086)clt:0.003866657319568409)buv:0.001586348043447196)alp:0.0;", "unique_ids": ["83cd33d783-igl", "24174ebdc9-igl", "da96f2c471-igl", "2d29c65222-igl", "8828e95dd5-igl", "f74e482a75-igl", "02c4dcf740-igl", "4e6de5d38d-igl"], "invalid": false, "v_gene": "IGLV3-19*01", "d_gene": "IGLDx-x*x", "j_gene": "IGLJ2*01", "cdr3_length": 39, "mut_freqs": [0.033846153846153845, 0.033846153846153845, 0.027692307692307693, 0.027692307692307693, 0.036923076923076927, 0.043076923076923075, 0.052307692307692305, 0.046153846153846156], "n_mutations": [11, 11, 9, 9, 12, 14, 17, 15], "input_seqs": ["TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGCCCTCAGGGCTCCCAGACCGATTCTCTGGCTCCAGCTCAGAAAACATAGCTTCCTTGACCATCACTGGGGCTCACGCGGAGGATGACGCTGACAATTACTGTAACTCCCGGCACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCCGTGACTGTCGCCTTGGGACAGACAGTCAGGATCACATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTATTAGCAGAAGGCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACGACTGGCCCTCAGTGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGCAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACACACAGTCAGGATCACATGCCAAGGAGACTGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAACCCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGGCCTCAGGGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGAGGCTCAGGCGGAAGATGAGGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGGCCGTCCTCG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACACCCTCAGAGGCTTTTATGCAAGCTGGTACGAGCAGAAGCCAGGACAGCCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCAGGCCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGCCCTCAGGGTTCCCAGACCGATTCTCTGGCTCCAGCTCAGAAAACATAGCTTTCCTGACCATCACTGGGGCTCAGGCGGAGGATGACGCTGACAATTACTGTAACTCCCGGCACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACAGCCTCAGAAGCTATTGTGCAAGCTGGTACCAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGCCCTCAGGGTTCCCAGACCGATTCTCTGGCTCCAGCTCAGAAAACATAGCTTCCCTGACCATCACTGGGGCTCAGGCGGAGGATCACGCTGACAATTACTGTAACTCCCGGCACAGCAGTGGTAACCATGTGGTATTCGGCGCAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGCGACAGACAGTCAGGACCACATGTCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACGAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCGGAGCGATTCTCTGCGTCCAGCTCAGGAAAGACAGCTTCCTCGACCATCACTGGGGCTCAGGCGGAAGATGACGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGACAGACCAAGCTCACCGTCCTGG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACACACAGTCAGAATCACACGCCAAGGAGACTGCCTCAGGAGCTATTATGCAAGCTGGTACCAGCAGAAGTCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGGCCTCAGGGGTCCCAGACCGATTCTTTGGCTCCAGCTCAGGAAACACCCCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGACTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGGCCGTCCTAG"], "naive_seq": "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCACATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACTATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "duplicates": [[], [], [], [], [], [], [], []], "v_3p_del": 3, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true], "stops": [false, true, false, false, false, false, false, false], "paired-uids": [["83cd33d783-igh"], ["24174ebdc9-igh", "8828e95dd5-igl"], ["810f8f7056-igh", "810f8f7056-igk", "da96f2c471-igh"], ["2d29c65222-igh", "96f6ea6b59-igh", "96f6ea6b59-igk"], ["24174ebdc9-igh", "24174ebdc9-igl"], ["7bfd25e622-igh", "7bfd25e622-igk", "f74e482a75-igh"], ["02c4dcf740-igh", "a1f869b08f-igh", "a1f869b08f-igk"], ["475a17c3bd-igh", "475a17c3bd-igk", "4e6de5d38d-igh"]], "loci": ["igl", "igl", "igl", "igl", "igl", "igl", "igl", "igl"], "codon_positions": {"v": 258, "j": 294}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "dd76478982", "tree": "[&R] ((88ea4d6f94-igl:-0.0,3de3240f4c-igl:-0.0)fpy:-0.0)cgn:0.0;", "unique_ids": ["3de3240f4c-igl"], "invalid": false, "v_gene": "IGLV2-14*04", "d_gene": "IGLDx-x*x", "j_gene": "IGLJ3*02", "cdr3_length": 39, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGACGTTGGTGGTTATAACTATGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGATGTCAGTAATCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACCATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCAGCTCATATACAAGCAGCAGCACTCTCAGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG"], "naive_seq": "CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGACGTTGGTGGTTATAACTATGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGATGTCAGTAATCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACCATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCAGCTCATATACAAGCAGCAGCACTCTCAGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "duplicates": [[]], "v_3p_del": 1, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "CA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["3de3240f4c-igh", "99ec3a50a4-igh", "99ec3a50a4-igk"]], "loci": ["igl"], "codon_positions": {"v": 267, "j": 303}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "da8c9d16ae", "tree": "[&R] (94040b8e55-igl:-0.0)bgr:0.0;", "unique_ids": ["94040b8e55-igl"], "invalid": false, "v_gene": "IGLV3-1*01", "d_gene": "IGLDx-x*x", "j_gene": "IGLJ2*01", "cdr3_length": 33, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["TCCTATGAGCTGACTCAGCCACCCTCAGTGTCCGTGTCCCCAGGACAGACAGCCAGCATCACCTGCTCTGGAGATAAATTGGGGGATAAATATGCTTGCTGGTATCAGCAGAAGCCAGGCCAGTCCCCTGTGCTGGTCATCTATCAAGATAGCAAGCGGCCCTCAGGGATCCCTGAGCGATTCTCTGGCTCCAACTCTGGGAACACAGCCACTCTGACCATCAGCGGGACCCAGGCTATGGATGAGGCTGACTATTACTGTCAGGCGTGGGACAGCAGCACTGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG"], "has_shm_indels": [false], "naive_seq": "TCCTATGAGCTGACTCAGCCACCCTCAGTGTCCGTGTCCCCAGGACAGACAGCCAGCATCACCTGCTCTGGAGATAAATTGGGGGATAAATATGCTTGCTGGTATCAGCAGAAGCCAGGCCAGTCCCCTGTGCTGGTCATCTATCAAGATAGCAAGCGGCCCTCAGGGATCCCTGAGCGATTCTCTGGCTCCAACTCTGGGAACACAGCCACTCTGACCATCAGCGGGACCCAGGCTATGGATGAGGCTGACTATTACTGTCAGGCGTGGGACAGCAGCACTGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "duplicates": [[]], "v_3p_del": 2, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["94040b8e55-igh", "997456da00-igh", "997456da00-igk"]], "loci": ["igl"], "codon_positions": {"v": 258, "j": 288}}]}
test/paired/new-results/test/simu/igh.yaml ADDED
@@ -0,0 +1 @@
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV1-18*01": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-2*02": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-46*03": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTTTCCTGCAAGGCATCTGGATACACCTTCACCAGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAATAATCAACCCTAGTGGTGGTAGCACAAGCTACGCACAGAAGTTCCAGGGCAGAGTCACCATGACCAGGGACACGTCCACGAGCACAGTCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCTAGAGA", "IGHV1-69*04": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-8*01": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCAGTTATGATATCAACTGGGTGCGACAGGCCACTGGACAAGGGCTTGAGTGGATGGGATGGATGAACCCTAACAGTGGTAACACAGGCTATGCACAGAAGTTCCAGGGCAGAGTCACCATGACCAGGAACACCTCCATAAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGG", "IGHV2-5*02": "CAGATCACCTTGAAGGAGTCTGGTCCTACGCTGGTGAAACCCACACAGACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACCATCACCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACATATTACTGTGCACACAGAC", "IGHV2-70*01": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATAC", "IGHV3-11*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV3-15*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTAAAGCCTGGGGGGTCCCTTAGACTCTCCTGTGCAGCCTCTGGATTCACTTTCAGTAACGCCTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTGGCCGTATTAAAAGCAAAACTGATGGTGGGACAACAGACTACGCTGCACCCGTGAAAGGCAGATTCACCATCTCAAGAGATGATTCAAAAAACACGCTGTATCTGCAAATGAACAGCCTGAAAACCGAGGACACAGCCGTGTATTACTGTACCACAGA", "IGHV3-20*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGTGTGGTACGGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTGATGATTATGGCATGAGCTGGGTCCGCCAAGCTCCAGGGAAGGGGCTGGAGTGGGTCTCTGGTATTAATTGGAATGGTGGTAGCACAGGTTATGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCCCTGTATCTGCAAATGAACAGTCTGAGAGCCGAGGACACGGCCTTGTATCACTGTGCGAGAGA", "IGHV3-21*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCCTGGTCAAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATAGCATGAACTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCATCCATTAGTAGTAGTAGTAGTTACATATACTACGCAGACTCAGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-23*01": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGA", "IGHV3-30*04": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATGCTATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATCATATGATGGAAGTAATAAATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-33*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-48*02": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTATAGCATGAACTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTAGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAATGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGACGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-66*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCAGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-74*01": "GAGGTGCAGCTGGTGGAGTCCGGGGGAGGCTTAGTTCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTAGCTACTGGATGCACTGGGTCCGCCAAGCTCCAGGGAAGGGGCTGGTGTGGGTCTCACGTATTAATAGTGATGGGAGTAGCACAAGCTACGCGGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACACGCTGTATCTGCAAATGAACAGTCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCAAGAGA", "IGHV3-9*01": "GAAGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGCAGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTGATGATTATGCCATGCACTGGGTCCGGCAAGCTCCAGGGAAGGGCCTGGAGTGGGTCTCAGGTATTAGTTGGAATAGTGGTAGCATAGGCTATGCGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCCCTGTATCTGCAAATGAACAGTCTGAGAGCTGAGGACACGGCCTTGTATTACTGTGCAAAAGATA", "IGHV4-31*03": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCACAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTGGTGGTTACTACTGGAGCTGGATCCGCCAGCACCCAGGGAAGGGCCTGGAGTGGATTGGGTACATCTATTACAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTTACCATATCAGTAGACACGTCTAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACTGCCGCGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-39*01": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACA", "IGHV4-4*02": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGGGACCCTGTCCCTCACCTGCGCTGTCTCTGGTGGCTCCATCAGCAGTAGTAACTGGTGGAGTTGGGTCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGGAAATCTATCATAGTGGGAGCACCAACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCAGTAGACAAGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-59*11": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGTAGTCACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGA"}, "d": {"IGHD1-1*01": "GGTACAACTGGAACGAC", "IGHD1-14*01": "GGTATAACCGGAACCAC", "IGHD1-20*01": "GGTATAACTGGAACGAC", "IGHD1-26*01": "GGTATAGTGGGAGCTACTAC", "IGHD1-7*01": "GGTATAACTGGAACTAC", "IGHD2-15*01": "AGGATATTGTAGTGGTGGTAGCTGCTACTCC", "IGHD2-21*01": "AGCATATTGTGGTGGTGATTGCTATTCC", "IGHD3-10*01": "GTATTACTATGGTTCGGGGAGTTATTATAAC", "IGHD3-16*03": "GTATTATGATTACATTTGGGGGAGTTATCGTTATACC", "IGHD3-22*01": "GTATTACTATGATAGTAGTGGTTATTACTAC", "IGHD3-3*01": "GTATTACGATTTTTGGAGTGGTTATTATACC", "IGHD3-9*01": "GTATTACGATATTTTGACTGGTTATTATAAC", "IGHD4-17*01": "TGACTACGGTGACTAC", "IGHD5-24*01": "GTAGAGATGGCTACAATTAC", "IGHD6-13*01": "GGGTATAGCAGCAGCTGGTAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC", "IGHD6-6*01": "GAGTATAGCAGCTCGTCC", "IGHD7-27*01": "CTAACTGGGGA"}, "j": {"IGHJ1*01": "GCTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "IGHJ2*01": "CTACTGGTACTTCGATCTCTGGGGCCGTGGCACCCTGGTCACTGTCTCCTCAG", "IGHJ3*02": "TGATGCTTTTGATATCTGGGGCCAAGGGACAATGGTCACCGTCTCTTCAG", "IGHJ4*02": "ACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ5*02": "ACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ6*02": "ATTACTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"}}, "cyst-positions": {"IGHV1-69*04": 285, "IGHV3-74*01": 285, "IGHV2-5*02": 288, "IGHV4-59*11": 282, "IGHV3-9*01": 285, "IGHV1-2*02": 285, "IGHV3-33*01": 285, "IGHV3-21*01": 285, "IGHV2-70*01": 288, "IGHV1-18*01": 285, "IGHV4-31*03": 288, "IGHV3-7*01": 285, "IGHV3-11*01": 285, "IGHV3-30*04": 285, "IGHV3-66*01": 282, "IGHV1-8*01": 285, "IGHV4-39*01": 288, "IGHV1-46*03": 285, "IGHV3-23*01": 285, "IGHV3-15*01": 291, "IGHV3-20*01": 285, "IGHV3-48*02": 285, "IGHV4-4*02": 285}, "tryp-positions": {"IGHJ4*02": 14, "IGHJ2*01": 19, "IGHJ3*02": 16, "IGHJ6*02": 29, "IGHJ5*02": 17, "IGHJ1*01": 18}}, "partitions": [{"logprob": 0.0, "n_clusters": 10, "n_procs": 1, "partition": [["a59a86319d-igh", "63c1e600bb-igh", "96f6ea6b59-igh", "57810cb714-igh", "da88a0f870-igh", "3659f04e0b-igh", "962cf676f9-igh", "8abdecedf6-igh", "f9494fc130-igh"], ["816fc82f73-igh", "810f8f7056-igh", "997456da00-igh", "047be6c743-igh", "7e90b4242e-igh", "14e4ff3a6a-igh"], ["5b83db58bc-igh"], ["dde37df0f3-igh", "ceb855766e-igh", "638b01f2ff-igh", "dc03113497-igh", "42584a044c-igh", "7bfd25e622-igh"], ["a1f869b08f-igh"], ["626eeaeec5-igh"], ["7713c8e94f-igh", "2e42f5c485-igh", "feeff50eb0-igh", "cb9b787bf3-igh", "2f6c99db02-igh", "6a1829447f-igh", "d7b2f887dc-igh", "99ec3a50a4-igh", "9b1977f91e-igh", "475a17c3bd-igh", "bc72018f26-igh", "9cfd60a4c8-igh", "90bc43bbe6-igh"], ["83cd33d783-igh", "24174ebdc9-igh", "da96f2c471-igh", "2d29c65222-igh", "f74e482a75-igh", "c022154f42-igh", "0e191a1e72-igh", "02c4dcf740-igh", "4e6de5d38d-igh"], ["3de3240f4c-igh", "88ea4d6f94-igh"], ["94040b8e55-igh"]]}], "events": [{"has_shm_indels": [false, false, false, false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", "", ""], "reco_id": "8a9d39afe0", "tree": "[&R] ((((((f9494fc130-igh:0.055287905039308034,3659f04e0b-igh:0.055287905039308034)ltu:0.001907871751482972,96f6ea6b59-igh:0.057195776789943094)lnz:0.04154495365344709,(a59a86319d-igh:0.02395363419572574,(da88a0f870-igh:0.014620720835236483,88969bbdba-igh:0.014620720835236483)abi:0.009332913368968337)qtz:0.07478709624766444)acj:0.0024569791075291893,63c1e600bb-igh:0.10119770956109427)oxy:0.006776771767820858,(962cf676f9-igh:0.09311353123087399,(57810cb714-igh:0.08859795668721575,8abdecedf6-igh:0.08859795668721575)fop:0.004515574511437732)btu:0.014860950100584865)dhn:0.006096904164877114)akt:0.0;", "unique_ids": ["a59a86319d-igh", "63c1e600bb-igh", "96f6ea6b59-igh", "57810cb714-igh", "da88a0f870-igh", "3659f04e0b-igh", "962cf676f9-igh", "8abdecedf6-igh", "f9494fc130-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ6*02", "cdr3_length": 69, "mut_freqs": [0.1038961038961039, 0.08311688311688312, 0.11428571428571428, 0.08571428571428572, 0.09350649350649351, 0.11948051948051948, 0.09610389610389611, 0.0987012987012987, 0.11428571428571428], "n_mutations": [40, 32, 44, 33, 36, 46, 37, 38, 44], "input_seqs": ["CAGGTGCAGCTGGTGGAGTTTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCTCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTAGGTCCACCAAGCTCCAGGCAAGTGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGGAGACTCAGTGAAACGCCAATTCTCCATCTCCAGAGACAATTCCAAGAACGAGCTGTATCTGCTAATGAACAGCCTCCGAGCCGAGGAAACGGCTGTGTATTGCTGTGCGAGGAAGTTTGTATTTGCAGCAACTGCTGATATAGTTTACTACTCCTACGGTATGGACGTCTGGGACAAAAGGACCACGGTCACCGTCTCCTAAG", "TAGGTGCAGCTGGTGGAGTTTGAGGGAGGCCTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCATTGGGTCCGCCAGGCTCCAGGCAAGTGGCTTGAGTGGGTGGCAGTTATATGGTATGATGGAACTAATAAATACTATGCAGACTCCGTGAAGGGCCGGGTCACCATCTCTAGAGACACTTCCAAGAACACGCTGTATCTTGAAATGAACAGCCTGAGAGCCGAGGACACGGCTTTGTATTACTGTGCGGGAGAACCTTCATTTGCGCGAATTTTCGCTATGCGTTACTATTACTACGGTATGGACGTCTGGGGCCAAAGGATCACGGTCACTGTGTCCTCAG", "CAAGTGCAGCTCGTGGAGTTTCGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGAGTCTTCCGTGCAGCGTCTGGATCCACCTTCAGTTGCTATGGCATGCACTAGGTCCGCCAGGCTCCAGGCAAGTGCCTGGAGTAGGTGCCAGTTATTTGGTATGATGGAAGTAATGAATATTATGCAGACTCCGCGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACACTGTACCTGCATATGAACAGCCTGAGAGCCAGGAACACAGCTGTGTATTGCTGTGCGAGACAGCTTACCTTTAGACGAATGTTCGCTATCTTTTACTAGTACTACGGTATGGACGTCTGGCGCCAAAGAACCACGGTCACCATCTCCTCAG", "CAGGTGCAGCTGGTCGAGTTTGGGGCTGGCGTGGTCCAGCCTGCGAGGTCCCTGAGACTCTCCTGTGCAGTGTCTGGGTTCACCTTCAGTAGCCATGGCACGCACTGGGTCCCCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAATTATATGGTATGATGGAAGTAATAAATACTGCGCAGACTCCGTGAAGGGCCGATTCCCCATCTCCAGAGACAATTCTAACAAAACGCTGTATCTGCAAATGAACAGCCTGAGCGCCGTGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGTCTAATCAGTTTTCTTCCTTACTAATACTACGGTATGGACGTCTGGGGCTAAAGGACCACGCTCACCGTCTCCTCAG", "CAGGTGCAGCTGGTGGAGTTTGGGGGAGGCGTGCTCCAGCCTGGGAGGTCTCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAACTATGGCATGCACTAGGTCCACGAAGCTCCAGGCAAGTGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGGAGACTCCGTGAAACGCCGATTCTCCATCTCCAGAGACAATTCCAAGAACGAGTTGTATCTGCTAATGAACAGCCTGAGAGCCGAGGAAACGGCTGTGTATTGCTGTGCGAGGAAGATTCCATTTGCGGCAACTATTTGTGTACCTTTCTACTCCTACGGTATGGACGTCTGGGACGAAAGGACCACGGTCACCGTCTCCTAAG", "CAGGTGGAGGTCGTGGAGTTTGGGGGAGACGTGGTCCAGCCTGGGAGGTCCCTGAGAGTCTTCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTAGCTCCGCCAGGCTCCAGGGAAGTGCTTGGGGTAGGTGCCAGTTATTTGGTATGATGGAAGTAATAAATATTATGCAGACTTCGCGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACACTGTATCTGCGTGTGCACAGCCTGAAAGGCGAGGACACAGCTGTGTATTACTGTGCGAAACAGATTATAATTAGGCGAATCCTTGCTCTTCTTTACTAGTACTACGGTATGGACGTCTGGCGCCAAAGAACCACGGTCACCGTCTCCTCAG", "CAGGTGCAGGTGGTGGAGTCTCGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGACATTCTTCTGTGCAGCCTCTGGATCCACTTTCAGTAGCCATGACATGCATTGGGTCCGCCAGGCTTCAGGCAAGGGACTGGAGTGGGTGGCAGTTATATGGTATCATGGAAGTAACAAATACTATGTAGACTCCGTGAAGGGCCAATTCACCATCTCCAGAAACAATTCCAAGAACACACTGTATCTGCAAATGAACAGCGTGAGCGGCGAGCACACGGCTGTGTATTACTGTGCGGGAGAAATTACACTTGCGTGGATTATCCTTACAGCTTACTACTACTACGATATGGACGTCTGGGACCAAAGGACCACGGTCACCGTCTTCTCAG", "CAGGCGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGCCCCTGAGCCGCTCCTGTGCAGCGTCTGGATCCACCTTCAGTAGCCATGGCATGCACTGGGTCCGCCAGGCTCGAGGCAAGGGGCTGGAGTGGGTGGCGGTTATATTGTATGATCGAAGTAATAAATACTACGCAGACTCCGTGAAGGGCCGATTTTCCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGACCAGCCCGAGGGCCGAGGATACGGCCGTGTATTACTGTGCGAGAAAGGTTACATTTGGAGCTACATCCCTTCTGTCTTGCTACTACTAGGGTCTGGACGTCTGGGGCCAAAGGACCACGGTCACCGCCTCCTCAC", "CAGGTGCAGCTCGTGGAGTTTGGGGGAGGTGTGATCCAGACTCGGAGGTCCCTGAGAGTCTTCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTAGGTCCGCCAGGCTCCAGGCAAGTGCCTGGAGTGGGTGCCAGTTATTTGGTATGATCGAAATAATAAATATTATGCAGACTCCGCGAAGGCCCGATTTACCATCTCCAGAGACAATTCCAATAACACACTGTATCTGCATATGAACAGCCTGAGAGCCGAGGACACAGCTGTGTATTACTGTGCGAGCCAGGTTATTTTCAGGCGAACCTTCAGCATACTTTACTAGTACTACGGTTTGGACGTCTGGCGCCAAAGAACCACGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCTTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "T", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true, true], "stops": [true, true, true, true, true, true, false, true, true], "paired-uids": [[], [], ["2d29c65222-igh", "2d29c65222-igl", "96f6ea6b59-igk"], ["57810cb714-igk"], ["da88a0f870-igk"], [], ["962cf676f9-igk"], ["8abdecedf6-igk"], ["f9494fc130-igk"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 351}}, {"has_shm_indels": [false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", ""], "reco_id": "ca482b4daf", "tree": "[&R] ((7e90b4242e-igh:0.051463402886689776,(((14e4ff3a6a-igh:0.03295473809371059,(810f8f7056-igh:0.0030891486978107795,816fc82f73-igh:0.0030891486978107795)dnp:0.029865589396392934)qxy:0.006914997126175454,8a4877bbfc-igh:0.0398697352248173)gjl:0.008515126271973084,(047be6c743-igh:0.03688091087486433,(964f9e33e6-igh:0.0057111060969196594,997456da00-igh:0.0057111060969196594)fuz:0.031169804777944676)afj:0.01150395062192605)cvy:0.0030785413894062613)pvx:0.01487816253686522)bhv:0.0;", "unique_ids": ["816fc82f73-igh", "810f8f7056-igh", "997456da00-igh", "047be6c743-igh", "7e90b4242e-igh", "14e4ff3a6a-igh"], "invalid": false, "v_gene": "IGHV2-5*02", "d_gene": "IGHD1-20*01", "j_gene": "IGHJ1*01", "cdr3_length": 51, "mut_freqs": [0.06756756756756757, 0.06756756756756757, 0.05675675675675676, 0.07837837837837838, 0.05405405405405406, 0.062162162162162166], "n_mutations": [25, 25, 21, 29, 20, 23], "input_seqs": ["TAGATCACCTTGGACGAGTCTGGTCCTACGGTGGTGAAACCCACACACACCCTCACGCTGACCTGCAGCTTCTCTCGGTTCTCACTCAGCATTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACTGTCACCAAGGATACCTCCGAAAACTAGGTGGTCCATGCAATGACCGACATGGACCCTGTGGACTCAGTCACGTATTACTGTCCACACACGGGAAGTATAACTGGAATCCTTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "TAGATCACCTTGGACGAGTCTGGTCCTACGGTGGTGAAACCCACACACACCCTCACGCTGACCTGCAGCTTCTCTCGGTTCTCACTCAGCATTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACTGTCACCAAGGATACCTCCGAAAACTAGGTGGTCCATACAATGACCGACATGGACCCTGTGGACTCAGTCACGTATTACTGTCCACACACGGGAACTATAACTGGAATCCTTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGATGACCTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCACCGGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGGGCAGGCTCACCATCACCAAGGACGCCTCCGAAAACTAGGTGGTCCATACAATGACCGACATGGACCCTGTGGACACAGCCACATATTACTGTCCACACATCGGAGATATAGCTGATACCCTTGAATACTTCCAGCACTGGGACCAGGGGACCCTGGTCACCGTCTCCTCAG", "CAGATCACTTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCGCCTTCTTTCGGTTTTCACTCAGCACTAGTGGAGTGCCTGTGGGCTGGATCCGTCAGCCCCCAGGAAACGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGGGCAGGCTCACCATCACCAAGGACACCTCCGAAAACTAGGTGGTCCATACAATGACCAACATGGACCCTGTGGACACAGCCACATATTACTGTCCACACGTCGGGGGTATAATTGGTTGCCCCGAATTCTTCCACCACTGGGGCCAGGGCACCCTGGTCACCGTCTGCACAG", "CAGATCACCTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATACGTGCTCCAGCCCATCTCTGAAGAGCAGGCTCACCATCACCAAAGACTCCTCCGAAAACCAGGTCGTCCATACAATGACCGACATGGACCCTGTGGACACAGCCACATATTACTGTGTACACATCGGATATATGACTGGGCTGGTGGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGATCACCTTGAACGAGTCTGGTCCTACGCTGGTGAAACCCACACACACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAACCCCCAGGAAAGACCCTGGCGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACTGCCCATTTCTGAAGAGCAGGCTCACCATCACCAAGGATACCTCCGAAAACTAGGTGGTCCATACAATGACCGACATGGACCCTGTGGACTCACTCACATATTACTGTCCACACACTGGAGTTATATCTGGGACCTTGGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAC"], "naive_seq": "CAGATCACCTTGAAGGAGTCTGGTCCTACGCTGGTGAAACCCACACAGACCCTCACGCTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAGTGGGTGTGGGCTGGATCCGTCAGCCCCCAGGAAAGGCCCTGGAGTGGCTTGCACTCATTTATTGGGATGATGATAAGCGCTACAGCCCATCTCTGAAGAGCAGGCTCACCATCACCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACATATTACTGTGCACACACCGGAGGTATAACTGGAACGCTGGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], []], "v_3p_del": 4, "d_5p_del": 0, "d_3p_del": 2, "j_5p_del": 3, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "ACCGGA", "dj_insertion": "CTG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [true, true, true, true, false, true], "paired-uids": [["816fc82f73-igk"], ["810f8f7056-igk", "da96f2c471-igh", "da96f2c471-igl"], ["94040b8e55-igh", "94040b8e55-igl", "997456da00-igk"], ["047be6c743-igk"], ["7e90b4242e-igk"], ["14e4ff3a6a-igk"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 336}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "8ff5ec4520", "tree": "[&R] (5b83db58bc-igh:-0.0)ehv:0.0;", "unique_ids": ["5b83db58bc-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ6*02", "cdr3_length": 69, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCCTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCCTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "C", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["0e191a1e72-igh", "5b83db58bc-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 351}}, {"qr_gap_seqs": ["", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", ""], "reco_id": "6564755f20", "tree": "[&R] ((7bfd25e622-igh:-0.0,(((dde37df0f3-igh:-0.0,(42584a044c-igh:-0.0,ceb855766e-igh:-0.0)gms:-0.0)abo:-0.0,638b01f2ff-igh:-0.0)fhk:-0.0,dc03113497-igh:-0.0)gho:-0.0)vwy:-0.0)hnz:0.0;", "unique_ids": ["dde37df0f3-igh", "ceb855766e-igh", "638b01f2ff-igh", "dc03113497-igh", "42584a044c-igh", "7bfd25e622-igh"], "invalid": false, "v_gene": "IGHV3-23*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.0, 0.0, 0.0, 0.0, 0.0, 0.0], "n_mutations": [0, 0, 0, 0, 0, 0], "input_seqs": ["GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false, false, false, false, false, false], "naive_seq": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAGCTTCGCAGGCTGGTGCAATACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 12, "d_3p_del": 3, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GCTTCGCA", "dj_insertion": "TGCAA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [false, false, false, false, false, false], "paired-uids": [["88ea4d6f94-igh", "dde37df0f3-igk"], ["ceb855766e-igk"], ["638b01f2ff-igk"], [], ["42584a044c-igk"], ["7bfd25e622-igk", "f74e482a75-igh", "f74e482a75-igl"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 327}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "b2144fab8e", "tree": "[&R] (a1f869b08f-igh:0.052028153902089515)bfo:0.0;", "unique_ids": ["a1f869b08f-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ6*02", "cdr3_length": 69, "mut_freqs": [0.06493506493506493], "n_mutations": [25], "input_seqs": ["CATGTGCAGCTGGTGGAGTCTGGGGGAGGTGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTACAGCGTCTGGATTCACCTTCAGTAGGTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAAGGGCTGGAGTGCGTGGCGGTTATATGGTATGATGGAAGTGATAAATGCTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTTCCAGAACACGCTGTATCTGCAAATGAACAACCTGAGAGCCGAGGACACCGCTGTGTATTACTGTGCGAGAGACATTACAATTACAGAACTTACCGCCATACGCTACTACTACTACGGTATGGACGTCTGGGGCCGAGGGACCACGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGATTACATTTGGGGGAGTTATCGTTATACCCTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "C", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["02c4dcf740-igh", "02c4dcf740-igl", "a1f869b08f-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 351}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "182e588062", "tree": "[&R] (626eeaeec5-igh:0.05486906638979231)emy:0.0;", "unique_ids": ["626eeaeec5-igh"], "invalid": false, "v_gene": "IGHV3-23*01", "d_gene": "IGHD5-24*01", "j_gene": "IGHJ4*02", "cdr3_length": 51, "mut_freqs": [0.05722070844686648], "n_mutations": [21], "input_seqs": ["GAGGTGCAGCTGTTGGAGTCTGGGGGAGCCTTGGTACAGCCTGGGGGCTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCGGCTATTTGTGGTAGTGGTGGTAGTACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCAACTCCAGAGACAATTCCAAGAACACGCTGTGTCTGCAAATGAACAGCCTGAGAGCCGGGGACAGGGCCGTATATTACTGTGCTTGGGGTTGAGGATCGCGTAGAAATAGCTATAATTTTGACTACTGGGACCAGTGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGGCTGGATGGGGAGCGCGTAGAGATGGCTACAATTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 6, "d_5p_del": 0, "d_3p_del": 3, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GGCTGGATGGGGAGCGC", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "paired-uids": [["626eeaeec5-igk", "c022154f42-igh"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 333}}, {"qr_gap_seqs": ["", "", "", "", "", "", "", "", "", "", "", "CAGGTCCAGCTGTAGCCTGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTAGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGTGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", "", "", "", "", "CAGGTCCAGCTG......GTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", "", "", "", "", "CAGGTCCAGCTGGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTAGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGTGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", ""], "reco_id": "d217d13f25", "tree": "[&R] (((475a17c3bd-igh:0.024434724505878126,((9cfd60a4c8-igh:0.0005385395631263077,bc72018f26-igh:0.0005385395631263077)aik:0.0120395529242032,((7713c8e94f-igh:0.007203530106460863,feeff50eb0-igh:0.007203530106460863)mqw:0.00395603746532079,(cb9b787bf3-igh:0.009662112432925023,((90bc43bbe6-igh:0.0005324356364431531,9b1977f91e-igh:0.0005324356364431531)opz:0.00020492835351040137,99ec3a50a4-igh:0.000737363989865308)acv:0.00892474844460403)bfo:0.001497455137753548)der:0.0014185249159890893)aem:0.011856632019431084)mtv:0.003920582495277975,((6a1829447f-igh:0.01855194606246793,2f6c99db02-igh:0.01855194606246793)aly:0.007805482419400395,(2e42f5c485-igh:0.00028151529083928547,d7b2f887dc-igh:0.00028151529083928547)dfj:0.02607591318463116)isu:0.001997878521273324)vwz:0.0013248247968210064)hkw:0.0;", "unique_ids": ["7713c8e94f-igh", "2e42f5c485-igh", "feeff50eb0-igh", "cb9b787bf3-igh", "2f6c99db02-igh", "6a1829447f-igh", "d7b2f887dc-igh", "99ec3a50a4-igh", "9b1977f91e-igh", "475a17c3bd-igh", "bc72018f26-igh", "9cfd60a4c8-igh", "90bc43bbe6-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ4*02", "cdr3_length": 42, "mut_freqs": [0.0223463687150838, 0.036312849162011177, 0.025139664804469275, 0.0335195530726257, 0.04189944134078212, 0.0335195530726257, 0.036312849162011177, 0.036312849162011177, 0.0335195530726257, 0.0223463687150838, 0.027932960893854747, 0.0335195530726257, 0.0335195530726257], "n_mutations": [8, 13, 9, 12, 15, 12, 13, 13, 12, 8, 10, 12, 12], "input_seqs": ["CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCCATGCTATCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGACACAAAGTTTCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTCGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCACCTTGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAGGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACGGGGGACAAATCCACGAGCACACCCTACATGGAGCTGAGCAGCCTGAGATCTAAGGACATGGCCGTGTATTACTGTGCGAGCTTTTGGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTTTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAAGCTTCTGGAGGCACCTTCAGCAGCCATGCTATCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGATTGTCGTAGGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTATCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAACCTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACATGGCCGTGTATTACTGTGCGAGGTTGTGGTAGGCGCATAGTTTCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAACGCTTCTGGAGGCGCCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCTAGGGCAGAGTCACGATTACCACGGACAAATCCGCGAGCCCAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATGACTGTGCGAGGTTATCCCAAGCGCATGCTTTTTTTGAATACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTAGTGCAGTCTGCGGCTGAGCTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAACGCTTCTGGAGGCACCTTCAGCAGCTTTGCTATCAGCTGGGTGCGACAGGCGCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATTCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCACGGACAAATCCACGAGCACAGCCTAGATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCTATCGCATGCCCATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTCGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCACCTTGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAGGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACGGGGGACAAATCCACGAGCACACCCTACATGGAGCTGAGCAGCCTGAGATCTAAGGACATGGCCGTGTATTACTGTGCGAGCTTTTGGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTTTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTGTCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATCGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGCCACGTAGCTTTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTGTCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATCGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGCCACGTAGTTTTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCCCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGCTTACCGCGGACAAATCCACGACCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGTCAGGTTATTACAGGCACATAGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGTAGCCTGTGCAGTCTGGCGCTGAGGTGAAGAAGCCTAGGTCCTCGCTGAACGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCGATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGTGTGGATGGGGAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATTGTAAGCACATAGTTTCTTTGACTACTGGGGCCAGGGAACTCTGGTCACCGTCTCCTCAG", "CAGGTCCAGCTGGTGAAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCACCCATGCTGTCAGCTCGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATCGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGTAGCCACGTAGTTTTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false, false, false, false, false, false, false, false, false, false, false, true, false], "naive_seq": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGTTATCGCAGGCACATAGTTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], [], [], [], [], []], "v_3p_del": 3, "d_5p_del": 24, "d_3p_del": 7, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "G", "dj_insertion": "CAGGCACATAGTTCC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true, true, true, true, true, true], "stops": [true, false, true, true, true, true, false, true, true, false, true, true, true], "paired-uids": [["7713c8e94f-igk"], ["2e42f5c485-igk"], ["feeff50eb0-igk"], ["cb9b787bf3-igk"], ["2f6c99db02-igk"], ["6a1829447f-igk"], ["d7b2f887dc-igk"], ["3de3240f4c-igh", "3de3240f4c-igl", "99ec3a50a4-igk"], [], ["475a17c3bd-igk", "4e6de5d38d-igh", "4e6de5d38d-igl"], [], ["9cfd60a4c8-igk"], []], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 324}}, {"has_shm_indels": [false, true, false, false, true, false, false, false, false], "qr_gap_seqs": ["", "CAAGTGCAGCTGGTGCAGTCTGGGGGAGGCTTGATCAAGCCTCAAAGCCCCCTGAAACTCTTCTGCGCAGTCTCTGGATTCACCTTCGGTGACTAGTGCATTAGCTGGATCCCCCCGACTCCAGGAATAGGGCTGGAGTCGGTTTCATACATTATTAGTAGTGGTGGTTCCATGTAC....CAGATTCTGTGAAGGGCCGATTCACCATCTCTAGGGACAATGGCAAGAACTCACTATATCTGTAAATGAACAGCCCGAGAGCCGAGAACACGGCCATGTGTTACTGTGCGAGAGACTTAGATGTATTGTACTAGCTCTTTGATTACTGGGGCTAGGGAACCCTGGTGACCGTCTCCTCGG", "", "", "CAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTCTGCAGCTTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCAGGGATGGGGCTGAAGTGGATTTCATACATTATTAGTAGTAG.AGTTCCATAGGCATCGCACACTCTGTGAAAGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGGGAGATCTTCTTGTCTGCTGGCGTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCGG", "", "", "", ""], "gl_gap_seqs": ["", "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACCAGCCTAACTGGGGCTGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACCAGCCTAACTGGGGCTGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", "", ""], "indel_reversed_seqs": ["", "CAAGTGCAGCTGGTGCAGTCTGGGGGAGGCTTGATCAAGCCTCAAAGCCCCCTGAAACTCTTCTGCGCAGTCTCTGGATTCACCTTCGGTGACTAGTGCATTAGCTGGATCCCCCCGACTCCAGGAATAGGGCTGGAGTCGGTTTCATACATTATTAGTAGTGGTGGTTCCATGTACTTCGCAGATTCTGTGAAGGGCCGATTCACCATCTCTAGGGACAATGGCAAGAACTCACTATATCTGTAAATGAACAGCCCGAGAGCCGAGAACACGGCCATGTGTTACTGTGCGAGAGACTTAGATGTATTGTACTAGCTCTTTGATTACTGGGGCTAGGGAACCCTGGTGACCGTCTCCTCGG", "", "", "CAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTCTGCAGCTTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCAGGGATGGGGCTGAAGTGGATTTCATACATTATTAGTAGTAGTAGTTCCATAGGCATCGCACACTCTGTGAAAGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGGGAGATCTTCTTGTCTGCTGGCGTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCGG", "", "", "", ""], "reco_id": "e707c96016", "tree": "[&R] ((((((4e6de5d38d-igh:0.07209171405096904,c022154f42-igh:0.07209171405096904)bej:0.0024877365972909237,da96f2c471-igh:0.07457945064715434)gju:0.05417182866516069,(83cd33d783-igh:0.031233929838579148,(8828e95dd5-igh:0.019064437781166208,f74e482a75-igh:0.019064437781166208)gqw:0.01216949206846909)dlt:0.09751734947373586)gko:0.003203735701746465,24174ebdc9-igh:0.13195501502732887)uwz:0.008836455136563368,(0e191a1e72-igh:0.12141378956210414,(2d29c65222-igh:0.11552578370357505,02c4dcf740-igh:0.11552578370357505)ovz:0.005888005816515696)hko:0.01937768060510495)htz:0.007949953454340257)emp:0.0;", "unique_ids": ["83cd33d783-igh", "24174ebdc9-igh", "da96f2c471-igh", "2d29c65222-igh", "f74e482a75-igh", "c022154f42-igh", "0e191a1e72-igh", "02c4dcf740-igh", "4e6de5d38d-igh"], "invalid": false, "v_gene": "IGHV3-11*01", "d_gene": "IGHD7-27*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.1523545706371191, 0.15789473684210525, 0.13850415512465375, 0.13850415512465375, 0.14127423822714683, 0.1883656509695291, 0.10526315789473684, 0.12465373961218837, 0.16066481994459833], "n_mutations": [55, 57, 50, 50, 51, 68, 38, 45, 58], "input_seqs": ["CAGCTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTGTGCGGCCTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCGGGGATAGGGCTGAAGTGGATTTCATACATTATTAGTAGTAGTATTTCCATAGGCATCGCAGAATGTGTGAAGGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGAGAGATCTTCTTCTCTGCACGCCTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCCG", "CAAGTGCAGCTGGTGCAGTCTGGGGGAGGCTTGATCAAGCCTCAAAGCCCCCTGAAACTCTTCTGCGCAGTCTCTGGATTCACCTTCGGTGACTAGTGCATTAGCTGGATCCCCCCGACTCCAGGAATAGGGCTGGAGTCGGTTTCATACATTATTAGTAGTGGTGGTTCCATGTACCAGATTCTGTGAAGGGCCGATTCACCATCTCTAGGGACAATGGCAAGAACTCACTATATCTGTAAATGAACAGCCCGAGAGCCGAGAACACGGCCATGTGTTACTGTGCGAGAGACTTAGATGTATTGTACTAGCTCTTTGATTACTGGGGCTAGGGAACCCTGGTGACCGTCTCCTCGG", "CAGGTGCAGCTGGTGGTGTCTGGGGGAACCTTGATCAAGCCTGAAGGGCGCCTGAAATTCTCCTGCGCAGCCTCTGGATTCACCTTCAGTGATTAGTACATGAACTGGATCCGCCAGGCTGCACAGATGTGGCTGGACTGGGTTTCATACATTATTAGTAGTGGTAGTACCATATACTTCCCACACTCTGTGAAGGGCCGAATCATCATCTCCAGGGACAACAGCAAGAACTCACTCTATCTGCAAATGAACAGCCCGAGTGTCGAGGACACGGCCGTGTATTACTGTGAGAGGGATAATTTTCATTGCCGATACTGCTCTGACTATTGGGGCCAGGGAACGCTGGTCACCGTCACCTCGG", "CAGGTGCAGCTGGTGGAATCTGGGGAAGGCTTGGTTAAGCCTGGAGGGCCCCTGGGACTCTCCTCTACAATCTGTGGATTTACCTTCAGTTACTACTACATGAGCTGGATCGGCCAGGCTTCAGGGAAGGGGCTCGAGTGAGTTTCATACATTATTAGTTCTGATAGTCCCCTCTACTTCGCACACTCCGTGAAGAGCCGATTCACCGTCTCCAGGGACAATGCCAAGAACTCACTGTATGTCCAAATGAACAGATGGAGTGCCGAGGACACGGCCGTGTATTACTGTGCGGCGGACCACCGTCAACAGAGTAACTCCTTTGACTACTGGGGCCAGGGAACACTGGTCACCGTCTCCTCGG", "CAGGTGCAGCCGGTGGAGTCTGGGGGAGGCTTGATCAAACCTGGAGGGCGCCTGAAACTCTCCTCTGCAGCTTCTGGATTCACCTTCAGTCACTAGTACATGAGCTGCATCCGCCAGGCTCCAGGGATGGGGCTGAAGTGGATTTCATACATTATTAGTAGTAGAGTTCCATAGGCATCGCACACTCTGTGAAAGGCCGATTTATCATCTCCAGGGAGAACGCCGAGAACTCACTGTCTTTGCAAATGAACAACCCGAGAGTCGAGGACACGGCCTTGTATTACTGTGCGGGAGATCTTCTTGTCTGCTGGCGTCTCTTTGATTACTGGCGCCAGGGAACCCTGGTTACCGTCTCCTCGG", "CAGGTGCACCTGGTGATGTTTGGCGCAGGCTTGATCAAGCCTGAAGGGCGCCTGAAACTCTCCCGCGCAGCCTCTGGACTCACCTTCATTGATTAGTTCGTGAGCTGGATCCGCCAGGCTGCAGAGGTCTGGCTGGACTGGGTTTCATACATTATTAGTAGTGGTACTACCATATACTTCGCACACTCTGTGAAGGGCCGATCCATCATCTCCAAGGACAACGCCAACAAGTCAGTCTATCTGCAAGTGAACAGCCCGAGTGTCGAGGACACGGCCGTGTTTGACTGTGCGGGAGGTAGTCATCTCGTGACTTCGGGCTCTGACTTCTGGGGCCAGGGAACGCTGGTCAGCGTCACTTCGG", "CAGGTGCAGCTGGTCTAGTCTGAGGGAGGGTTGGTCAAGCCTGGAGGGCCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCGCCTTCAGTGACTGCCACATGAGCTGGATCCGCCAGACTCCAGGGAAGAGGCTAGAGTGGGTTTCATACATTATTAGTAGTGGTAGTACCCTATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAAGGCCAAGAACTCACTGTATCTGTAAATGAACGGGCCGAGTGCCGAGGACATGTCCGTGTATTACTGTGCGAAAGACTTCCCCGGGTCCCGCTCGTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCGCCGTTTCCTTTG", "CAGGTGTGACTGGTAGAGTCTCGGGGAGGCTTGGTCAAGCCTAAAGGGCCCCTGAGACTCTCCTGTGTAGCCTCTGGATTCACCTTCAATGACTACTACGTGAGCTGGATCCCCCAGGCTCCAGGGAAAGGGTTGGAGTGGGTTTCATACGTTACTAGATCTGGTAGTACCCTATACTACGCTGACTCTGTGATGGGCGGATTCGCCATCTCCAGGAACAACGCTAAGAACTCACTGTATCTGCAAATGAACAGCCCGAGAGCCGAGGACACGGCCGTATATTAATGTGCGCGAAATCTTCCTTACTGAATTTCCTTCTTTGACTACTGGGGCTAGGGAACCCTGGTCACCGTCCCTTCGG", "CGGATGCAGCTGGTGGTGCCTCGGGGAAGCTTGATCAAGCCTGAAGGGCGCCTGAAACTCTCCTGCGCAGCCTCTGGATTCACCTTCAGTGATTAGTACATGAGCTGGATCTGCCTGGCTGCAGAGATGTGGCTGGACTGGGTTTCATACATTATTGGTAGTGGTAGTAGCATATACTTCGCACACTCTGTGAGTGGCCTATCCATCATCTCCAGGGACAACGCCAAGAGCTCAGTGTATCTGCAAATGAACAGCCCGAGTGTCGAGGACACGGGCGTGTATTACTGTGCGAGAGAAACTCTTCTCCTATTTTCCTCCTCTAACTACTGGGGCTAGGGAACGCCGGTCACCGTCGCCTCGG"], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCAAGCCTGGAGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTCAGTGACTACTACATGAGCTGGATCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTTTCATACATTAGTAGTAGTGGTAGTACCATATACTACGCAGACTCTGTGAAGGGCCGATTCACCATCTCCAGGGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACCAGCCTAACTGGGGCTGCTCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 0, "d_3p_del": 1, "j_5p_del": 4, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCAGC", "dj_insertion": "CTGCTC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false], "in_frames": [true, false, true, true, false, true, true, true, true], "stops": [true, true, true, true, true, true, true, true, true], "paired-uids": [["83cd33d783-igl"], ["24174ebdc9-igl", "8828e95dd5-igl"], ["810f8f7056-igh", "810f8f7056-igk", "da96f2c471-igl"], ["2d29c65222-igl", "96f6ea6b59-igh", "96f6ea6b59-igk"], ["7bfd25e622-igh", "7bfd25e622-igk", "f74e482a75-igl"], ["626eeaeec5-igh", "626eeaeec5-igk"], ["5b83db58bc-igh", "5b83db58bc-igk"], ["02c4dcf740-igl", "a1f869b08f-igh", "a1f869b08f-igk"], ["475a17c3bd-igh", "475a17c3bd-igk", "4e6de5d38d-igl"]], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 285, "j": 327}}, {"qr_gap_seqs": ["GAGGTGCAGCTGTTGGGGTCTGGCGGAAGCTTGGTACAG.....GGGCCTCCTGAGACTCTCCTGCTCAGCCTCTGGACTCAACTTTAGTAGCCATACCATGAGCTGGGTCCGCCAGGGTCCAGGAAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAAACTCTGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAAGAACACGCCATATCTGCAGATGAACAGCCTCGGAGCCGAGGACACGGACCTATATTACTGTGGGAAAGATCTGAGGGAGGCGTTCCGTTACTTTGGCTATTGGGCCCAGGGAACCCTGGTCACCGTCTCCCCAG", "GGGCTGCAGCTGTTGGAGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCTCCCTGAAACTCTCCTCTTCAGCCTCTGGATTCAGTTTTAGCAGCCATGCCACGAGCTGGGTCCGCCAGCGTCCAGGGAAGGGACTG..................AGTGGCAGTGGTGGTAGCACATACTACGTACACTCCGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAGGAACACGCCGTATCTGCAGATGAACAGCTTGCGAGCCAAGGACACGGACCTATATTACTGTGGGAAAGATTCGCCATCGCTCTTCAGTTGCTTTGGCTATTGGGGCCAGGGAACCCTGGTCACCGTCTCCCCAG"], "gl_gap_seqs": ["GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGACTCAGCACGGCTGGTGAATTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGACTCAGCACGGCTGGTGAATTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["GAGGTGCAGCTGTTGGGGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCCTCCTGAGACTCTCCTGCTCAGCCTCTGGACTCAACTTTAGTAGCCATACCATGAGCTGGGTCCGCCAGGGTCCAGGAAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAAACTCTGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAAGAACACGCCATATCTGCAGATGAACAGCCTCGGAGCCGAGGACACGGACCTATATTACTGTGGGAAAGATCTGAGGGAGGCGTTCCGTTACTTTGGCTATTGGGCCCAGGGAACCCTGGTCACCGTCTCCCCAG", "GGGCTGCAGCTGTTGGAGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCTCCCTGAAACTCTCCTCTTCAGCCTCTGGATTCAGTTTTAGCAGCCATGCCACGAGCTGGGTCCGCCAGCGTCCAGGGAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGCAGTGGTGGTAGCACATACTACGTACACTCCGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAGGAACACGCCGTATCTGCAGATGAACAGCTTGCGAGCCAAGGACACGGACCTATATTACTGTGGGAAAGATTCGCCATCGCTCTTCAGTTGCTTTGGCTATTGGGGCCAGGGAACCCTGGTCACCGTCTCCCCAG"], "reco_id": "dd76478982", "tree": "[&R] ((88ea4d6f94-igh:0.07199919300546116,3de3240f4c-igh:0.07199919300546116)qtx:0.08648262724494404)ivw:0.0;", "unique_ids": ["3de3240f4c-igh", "88ea4d6f94-igh"], "invalid": false, "v_gene": "IGHV3-23*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.13573407202216067, 0.12188365650969529], "n_mutations": [49, 44], "input_seqs": ["GAGGTGCAGCTGTTGGGGTCTGGCGGAAGCTTGGTACAGGGGCCTCCTGAGACTCTCCTGCTCAGCCTCTGGACTCAACTTTAGTAGCCATACCATGAGCTGGGTCCGCCAGGGTCCAGGAAAGGGACTGGAGTGGGTCTCGGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAAACTCTGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAAGAACACGCCATATCTGCAGATGAACAGCCTCGGAGCCGAGGACACGGACCTATATTACTGTGGGAAAGATCTGAGGGAGGCGTTCCGTTACTTTGGCTATTGGGCCCAGGGAACCCTGGTCACCGTCTCCCCAG", "GGGCTGCAGCTGTTGGAGTCTGGCGGAAGCTTGGTACAGCCTGGGGGCTCCCTGAAACTCTCCTCTTCAGCCTCTGGATTCAGTTTTAGCAGCCATGCCACGAGCTGGGTCCGCCAGCGTCCAGGGAAGGGACTGAGTGGCAGTGGTGGTAGCACATACTACGTACACTCCGTGAAGGGCCGATTCATTATCTCCAGAGACAATTCCAGGAACACGCCGTATCTGCAGATGAACAGCTTGCGAGCCAAGGACACGGACCTATATTACTGTGGGAAAGATTCGCCATCGCTCTTCAGTTGCTTTGGCTATTGGGGCCAGGGAACCCTGGTCACCGTCTCCCCAG"], "has_shm_indels": [true, true], "naive_seq": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGACTCAGCACGGCTGGTGAATTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "v_3p_del": 0, "d_5p_del": 12, "d_3p_del": 3, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTCAGCAC", "dj_insertion": "TGAAT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [false, true], "stops": [true, false], "paired-uids": [["3de3240f4c-igl", "99ec3a50a4-igh", "99ec3a50a4-igk"], ["dde37df0f3-igh", "dde37df0f3-igk"]], "loci": ["igh", "igh"], "codon_positions": {"v": 285, "j": 327}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "da8c9d16ae", "tree": "[&R] (94040b8e55-igh:0.11407138548387172)gko:0.0;", "unique_ids": ["94040b8e55-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD1-7*01", "j_gene": "IGHJ4*02", "cdr3_length": 45, "mut_freqs": [0.08587257617728532], "n_mutations": [31], "input_seqs": ["CAGGTCCAGCCGGTGCAGTCTCGGGCTGACGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCTCCTTCAGAAGCTATGCTATCAGCTGGGTACGACAGACCCCTGGACAAGGCTTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACACACAGCAGTTCCAGGGCAAAGTCACGGTTACCGCGGACAGATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGGTCTGAGGACACCGCCGTGTATTACTGTGCGAGAGAGACTATCCCCGGTAACTCATTGCAATTCTACTGGGGCCAGAGAACCCTGGTCACCGCCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGAGGCTATCCGCACTAACTGGAACTACCCCTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "v_3p_del": 0, "d_5p_del": 4, "d_3p_del": 0, "j_5p_del": 10, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GGCTATCCGCAC", "dj_insertion": "CC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["94040b8e55-igl", "997456da00-igh", "997456da00-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 327}}]}
test/paired/new-results/test/simu/igk.yaml ADDED
@@ -0,0 +1 @@
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igk", "functionalities": {}, "seqs": {"v": {"IGKV1-12*01": "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTCC", "IGKV1-27*01": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCGAGTCAGGGCATTAGCAATTATTTAGCCTGGTATCAGCAGAAACCAGGGAAAGTTCCTAAGCTCCTGATCTATGCTGCATCCACTTTGCAATCAGGGGTCCCATCTCGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATGTTGCAACTTATTACTGTCAAAAGTATAACAGTGCCCCTCC", "IGKV1-33*01": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCAGGCGAGTCAGGACATTAGCAACTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTACGATGCATCCAATTTGGAAACAGGGGTCCCATCAAGGTTCAGTGGAAGTGGATCTGGGACAGATTTTACTTTCACCATCAGCAGCCTGCAGCCTGAAGATATTGCAACATATTACTGTCAACAGTATGATAATCTCCCTCC", "IGKV1-5*01": "GACATCCAGATGACCCAGTCTCCTTCCACCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCCAGTCAGAGTATTAGTAGCTGGTTGGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGATGCCTCCAGTTTGGAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGAATTCACTCTCACCATCAGCAGCCTGCAGCCTGATGATTTTGCAACTTATTACTGCCAACAGTATAATAGTTATTCTCC", "IGKV1-8*03": "GCCATCCGGATGACCCAGTCTCCATCCTCACTCTCTGCATCTACAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGTTATTTAGCCTGGTATCAGCAAAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCACTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCTGCCTGCAGTCTGAAGATTTTGCAACTTATTACTGTCAACAGTATTATAGTTACCCTCC", "IGKV1-9*01": "GACATCCAGTTGACCCAGTCTCCATCCTTCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCCAGTCAGGGCATTAGCAGTTATTTAGCCTGGTATCAGCAAAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCACTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGAATTCACTCTCACAATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTATTACTGTCAACAGCTTAATAGTTACCCTCC", "IGKV1D-13*02": "GCCATCCAGTTGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGGGCATTAGCAGTGCTTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCTCCTAAGCTCCTGATCTATGATGCCTCCAGTTTGGAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTATTACTGTCAACAGTTTAATAGTTACCCTCA", "IGKV1D-39*01": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCC", "IGKV2-24*01": "GATATTGTGATGACCCAGACTCCACTCTCCTCACCTGTCACCCTTGGACAGCCGGCCTCCATCTCCTGCAGGTCTAGTCAAAGCCTCGTACACAGTGATGGAAACACCTACTTGAGTTGGCTTCAGCAGAGGCCAGGCCAGCCTCCAAGACTCCTAATTTATAAGATTTCTAACCGGTTCTCTGGGGTCCCAGACAGATTCAGTGGCAGTGGGGCAGGGACAGATTTCACACTGAAAATCAGCAGGGTGGAAGCTGAGGATGTCGGGGTTTATTACTGCATGCAAGCTACACAATTTCCTCA", "IGKV2-30*01": "GATGTTGTGATGACTCAGTCTCCACTCTCCCTGCCCGTCACCCTTGGACAGCCGGCCTCCATCTCCTGCAGGTCTAGTCAAAGCCTCGTATACAGTGATGGAAACACCTACTTGAATTGGTTTCAGCAGAGGCCAGGCCAATCTCCAAGGCGCCTAATTTATAAGGTTTCTAACCGGGACTCTGGGGTCCCAGACAGATTCAGCGGCAGTGGGTCAGGCACTGATTTCACACTGAAAATCAGCAGGGTGGAGGCTGAGGATGTTGGGGTTTATTACTGCATGCAAGGTACACACTGGCCTCC", "IGKV2D-28*01": "GATATTGTGATGACTCAGTCTCCACTCTCCCTGCCCGTCACCCCTGGAGAGCCGGCCTCCATCTCCTGCAGGTCTAGTCAGAGCCTCCTGCATAGTAATGGATACAACTATTTGGATTGGTACCTGCAGAAGCCAGGGCAGTCTCCACAGCTCCTGATCTATTTGGGTTCTAATCGGGCCTCCGGGGTCCCTGACAGGTTCAGTGGCAGTGGATCAGGCACAGATTTTACACTGAAAATCAGCAGAGTGGAGGCTGAGGATGTTGGGGTTTATTACTGCATGCAAGCTCTACAAACTCCTCC", "IGKV3-11*01": "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCC", "IGKV3-15*01": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGCCTCC", "IGKV3-20*01": "GAAATTGTGTTGACGCAGTCTCCAGGCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAGCTACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCAGCAGGGCCACTGGCATCCCAGACAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGACTGGAGCCTGAAGATTTTGCAGTGTATTACTGTCAGCAGTATGGTAGCTCACCTCC", "IGKV4-1*02": "GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCCTCC", "IGKV6-21*01": "GAAATTGTGCTGACTCAGTCTCCAGACTTTCAGTCTGTGACTCCAAAGGAGAAAGTCACCATCACCTGCCGGGCCAGTCAGAGCATTGGTAGTAGCTTACACTGGTACCAGCAGAAACCAGATCAGTCTCCAAAGCTCCTCATCAAGTATGCTTCCCAGTCCTTCTCAGGGGTCCCCTCGAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACCCTCACCATCAATAGCCTGGAAGCTGAAGATGCTGCAACGTATTACTGTCATCAGAGTAGTAGTTTACCTCA"}, "d": {"IGKDx-x*x": "A"}, "j": {"IGKJ1*01": "GTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "IGKJ2*01": "TGTACACTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "IGKJ2*03": "TGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "IGKJ2*04": "TGTGCAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "IGKJ3*01": "ATTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "IGKJ4*01": "GCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "IGKJ5*01": "GATCACCTTCGGCCAAGGGACACGACTGGAGATTAAAC"}}, "cyst-positions": {"IGKV1-5*01": 261, "IGKV1-9*01": 261, "IGKV3-20*01": 264, "IGKV2-24*01": 276, "IGKV1-33*01": 261, "IGKV1-12*01": 261, "IGKV2D-28*01": 276, "IGKV1-27*01": 261, "IGKV6-21*01": 261, "IGKV3-11*01": 261, "IGKV1D-39*01": 261, "IGKV1D-13*02": 261, "IGKV3-15*01": 261, "IGKV4-1*02": 279, "IGKV2-30*01": 276, "IGKV1-8*03": 261}, "phen-positions": {"IGKJ3*01": 7, "IGKJ5*01": 7, "IGKJ4*01": 7, "IGKJ2*04": 8, "IGKJ2*03": 8, "IGKJ2*01": 8, "IGKJ1*01": 7}}, "partitions": [{"logprob": 0.0, "n_clusters": 7, "n_procs": 1, "partition": [["96f6ea6b59-igk", "57810cb714-igk", "da88a0f870-igk", "962cf676f9-igk", "8abdecedf6-igk", "f9494fc130-igk"], ["816fc82f73-igk", "810f8f7056-igk", "997456da00-igk", "047be6c743-igk", "8a4877bbfc-igk", "7e90b4242e-igk", "964f9e33e6-igk", "14e4ff3a6a-igk"], ["5b83db58bc-igk"], ["dde37df0f3-igk", "ceb855766e-igk", "638b01f2ff-igk", "42584a044c-igk", "7bfd25e622-igk"], ["a1f869b08f-igk"], ["626eeaeec5-igk"], ["7713c8e94f-igk", "2e42f5c485-igk", "feeff50eb0-igk", "cb9b787bf3-igk", "2f6c99db02-igk", "6a1829447f-igk", "d7b2f887dc-igk", "99ec3a50a4-igk", "475a17c3bd-igk", "9cfd60a4c8-igk"]]}], "events": [{"has_shm_indels": [false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", ""], "reco_id": "8a9d39afe0", "tree": "[&R] ((((((f9494fc130-igk:0.009088188174857324,3659f04e0b-igk:0.009088188174857324)lot:0.00031361465909486536,96f6ea6b59-igk:0.00940180283381281)lmr:0.006829131186103249,(a59a86319d-igk:0.003937482074744522,(da88a0f870-igk:0.002403344133010928,88969bbdba-igk:0.002403344133010928)hxy:0.0015341379431273786)ijo:0.012293451945171535)ajt:0.00040387655229552806,63c1e600bb-igk:0.016634810573884128)gvw:0.0011139611276684994,(962cf676f9-igk:0.015305938845937294,(57810cb714-igk:0.014563671777919713,8abdecedf6-igk:0.014563671777919713)flx:0.000742267062721195)oux:0.00244283285603347)jwy:0.0010022049541410522)bkq:0.0;", "unique_ids": ["96f6ea6b59-igk", "57810cb714-igk", "da88a0f870-igk", "962cf676f9-igk", "8abdecedf6-igk", "f9494fc130-igk"], "invalid": false, "v_gene": "IGKV3-15*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ1*01", "cdr3_length": 30, "mut_freqs": [0.018808777429467086, 0.018808777429467086, 0.03134796238244514, 0.0219435736677116, 0.01567398119122257, 0.0219435736677116], "n_mutations": [6, 6, 10, 7, 5, 7], "input_seqs": ["GAAATAGTGATGACGCAGTCTCCACCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGCGCCAGTCAGAGTGTTAGCAGCAACTTAGACTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCACCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAAGAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCAGTCTCTCCTGCAGGGCCAGTCAGAGTGTTACCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACCGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGCTGGACGTTCGGCCAAGGGACCAAGATGGAAATCAAAC", "GAAATAGTGATGGCGCAGTCTCCAGCCATCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAAGGCCAGTCAGAGTGTTTGCAACAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCATGGCCACTGGAATCCCAGCCAGGTTCAGTGGCAGTGCGTCTGGGACAGAGTTCACTGTCACCATCAACAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCATCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTATTAACAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCGAGCCAGGTTCAGTGGCAGTGAGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGCTGGACGTTCGGCCAAGGGACCAACGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCGGCCACCCTGTCTGTGTCTCCGGGGGAAAGAGCCAGCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGCTGGACGTTCGGCCAAGGGACTAAGGTGGAAATCAAAC", "GAAATAGTGATGACGCAGTCTCCACCCACCCTGTCTGTGTCTCCAGGGGAAAGACCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGTCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCACCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCCAGAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC"], "naive_seq": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "duplicates": [[], [], [], [], [], []], "v_3p_del": 6, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true], "stops": [false, false, false, false, false, false], "paired-uids": [["2d29c65222-igh", "2d29c65222-igl", "96f6ea6b59-igh"], ["57810cb714-igh"], ["da88a0f870-igh"], ["962cf676f9-igh"], ["8abdecedf6-igh"], ["f9494fc130-igh"]], "loci": ["igk", "igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 288}}, {"qr_gap_seqs": ["", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", ""], "reco_id": "ca482b4daf", "tree": "[&R] ((7e90b4242e-igk:-0.0,(((14e4ff3a6a-igk:-0.0,(810f8f7056-igk:-0.0,816fc82f73-igk:-0.0)ghw:-0.0)ghn:-0.0,8a4877bbfc-igk:-0.0)ehr:-0.0,(047be6c743-igk:-0.0,(964f9e33e6-igk:-0.0,997456da00-igk:-0.0)kns:-0.0)kpv:-0.0)jux:-0.0)egh:-0.0)hmv:0.0;", "unique_ids": ["816fc82f73-igk", "810f8f7056-igk", "997456da00-igk", "047be6c743-igk", "8a4877bbfc-igk", "7e90b4242e-igk", "964f9e33e6-igk", "14e4ff3a6a-igk"], "invalid": false, "v_gene": "IGKV3-11*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ4*01", "cdr3_length": 36, "mut_freqs": [0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0], "n_mutations": [0, 0, 0, 0, 0, 0, 0, 0], "input_seqs": ["GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "has_shm_indels": [false, false, false, false, false, false, false, false], "naive_seq": "GAAATTGTGTTGACACAGTCTCCAGCCACCCTGTCTTTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCTACTTAGCCTGGTACCAACAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGATGCATCCAACAGGGCCACTGGCATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGACTTCACTCTCACCATCAGCAGCCTAGAGCCTGAAGATTTTGCAGTTTATTACTGTCAGCAGCGTAGCAACTGGCCTCCGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "duplicates": [[], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true], "stops": [false, false, false, false, false, false, false, false], "paired-uids": [["816fc82f73-igh"], ["810f8f7056-igh", "da96f2c471-igh", "da96f2c471-igl"], ["94040b8e55-igh", "94040b8e55-igl", "997456da00-igh"], ["047be6c743-igh"], [], ["7e90b4242e-igh"], [], ["14e4ff3a6a-igh"]], "loci": ["igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 294}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "8ff5ec4520", "tree": "[&R] (5b83db58bc-igk:-0.0)alx:0.0;", "unique_ids": ["5b83db58bc-igk"], "invalid": false, "v_gene": "IGKV3-15*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ1*01", "cdr3_length": 30, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC"], "has_shm_indels": [false], "naive_seq": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "duplicates": [[]], "v_3p_del": 6, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["0e191a1e72-igh", "5b83db58bc-igh"]], "loci": ["igk"], "codon_positions": {"v": 261, "j": 288}}, {"has_shm_indels": [false, false, true, false, false], "qr_gap_seqs": ["", "", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCC...GGACCAAAGTGGATATCAAAC", "", ""], "gl_gap_seqs": ["", "", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "", ""], "indel_reversed_seqs": ["", "", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "", ""], "reco_id": "6564755f20", "tree": "[&R] ((7bfd25e622-igk:0.0015848863081747064,(((dde37df0f3-igk:0.0001364902677696193,(42584a044c-igk:1.5282355027325288e-06,ceb855766e-igk:1.5282355027325288e-06)kpq:0.00013496203224876356)egm:0.00031270976494861215,638b01f2ff-igk:0.000449200032659134)lwy:0.0008174848805471554,dc03113497-igk:0.0012666849132062894)gix:0.00031820139477142556)dku:0.0010652931279492913)mrx:0.0;", "unique_ids": ["dde37df0f3-igk", "ceb855766e-igk", "638b01f2ff-igk", "42584a044c-igk", "7bfd25e622-igk"], "invalid": false, "v_gene": "IGKV1-12*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ3*01", "cdr3_length": 33, "mut_freqs": [0.0, 0.0, 0.0, 0.0, 0.006211180124223602], "n_mutations": [0, 0, 0, 0, 2], "input_seqs": ["GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATGACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCACCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC"], "naive_seq": "GACATCCAGATGACCCAGTCTCCATCTTCCGTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGTCGGGCGAGTCAGGGTATTAGCAGCTGGTTAGCCTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGCGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGCCTGAAGATTTTGCAACTTACTATTGTCAACAGGCTAACAGTTTCCCTTTCACTTTCGGCCCTGGGACCAAAGTGGATATCAAAC", "duplicates": [[], [], [], [], []], "v_3p_del": 2, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 1, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false], "in_frames": [true, true, true, true, true], "stops": [false, false, false, false, false], "paired-uids": [["88ea4d6f94-igh", "dde37df0f3-igh"], ["ceb855766e-igh"], ["638b01f2ff-igh"], ["42584a044c-igh"], ["7bfd25e622-igh", "f74e482a75-igh", "f74e482a75-igl"]], "loci": ["igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 291}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "b2144fab8e", "tree": "[&R] (a1f869b08f-igk:-0.0)aeh:0.0;", "unique_ids": ["a1f869b08f-igk"], "invalid": false, "v_gene": "IGKV3-15*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ1*01", "cdr3_length": 30, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC"], "has_shm_indels": [false], "naive_seq": "GAAATAGTGATGACGCAGTCTCCAGCCACCCTGTCTGTGTCTCCAGGGGAAAGAGCCACCCTCTCCTGCAGGGCCAGTCAGAGTGTTAGCAGCAACTTAGCCTGGTACCAGCAGAAACCTGGCCAGGCTCCCAGGCTCCTCATCTATGGTGCATCCACCAGGGCCACTGGTATCCCAGCCAGGTTCAGTGGCAGTGGGTCTGGGACAGAGTTCACTCTCACCATCAGCAGCCTGCAGTCTGAAGATTTTGCAGTTTATTACTGTCAGCAGTATAATAACTGGTGGACGTTCGGCCAAGGGACCAAGGTGGAAATCAAAC", "duplicates": [[]], "v_3p_del": 6, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["02c4dcf740-igh", "02c4dcf740-igl", "a1f869b08f-igh"]], "loci": ["igk"], "codon_positions": {"v": 261, "j": 288}}, {"qr_gap_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAA..AGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "gl_gap_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "indel_reversed_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "reco_id": "182e588062", "tree": "[&R] (626eeaeec5-igk:-0.0)bwx:0.0;", "unique_ids": ["626eeaeec5-igk"], "invalid": false, "v_gene": "IGKV4-1*02", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ4*01", "cdr3_length": 33, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAAAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC"], "has_shm_indels": [true], "naive_seq": "GACATCGTGATGACCCAGTCTCCAGACTCCCTGGCTGTGTCTCTGGGCGAGAGGGCCACCATCAACTGCAAGTCCAGCCAGAGTGTTTTATACAGCTCCAACAATAAGAACTACTTAGCTTGGTACCAGCAGAAACCAGGACAGCCTCCTAAGCTGCTCATTTACTGGGCATCTACCCGGGAATCCGGGGTCCCTGACCGATTCAGTGGCAGCGGGTCTGGGACAGATTTCACTCTCACCATCAGCAGCCTGCAGGCTGAAGATGTGGCAGTTTATTACTGTCAGCAGTATTATAGTACTCGGCTCACTTTCGGCGGAGGGACCAAGGTGGAGATCAAAC", "duplicates": [[]], "v_3p_del": 4, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 1, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [false], "stops": [true], "paired-uids": [["626eeaeec5-igh", "c022154f42-igh"]], "loci": ["igk"], "codon_positions": {"v": 279, "j": 309}}, {"has_shm_indels": [false, false, false, false, false, true, true, false, false, true], "qr_gap_seqs": ["", "", "", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCT...TCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAACGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCGCTTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAG...ACCAAGCTGGAGATCAAAC", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGATAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "gl_gap_seqs": ["", "", "", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAA.GCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATC...TGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAA....GTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCA..GAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "indel_reversed_seqs": ["", "", "", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "", "", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "reco_id": "d217d13f25", "tree": "[&R] (((475a17c3bd-igk:0.002181809866926833,((9cfd60a4c8-igk:4.808693186930687e-05,bc72018f26-igk:4.808693186930687e-05)uvy:0.001075028096064484,((7713c8e94f-igk:0.0006432130249391569,feeff50eb0-igk:0.0006432130249391569)gpw:0.0003532399791817882,(cb9b787bf3-igk:0.0008627431930505676,((90bc43bbe6-igk:4.754190393330125e-05,9b1977f91e-igk:4.754190393330125e-05)pwz:1.8298332096787258e-05,99ec3a50a4-igk:6.584023602220886e-05)hnq:0.0007969029571662528)hlv:0.00013370981097188177)lqu:0.00012666202385224425)efv:0.0010586948390718391)gly:0.0003500741565651919,((6a1829447f-igk:0.0016565285587750195,2f6c99db02-igk:0.0016565285587750195)eoq:0.0006969621677001058,(2e42f5c485-igk:2.5136884154195087e-05,d7b2f887dc-igk:2.5136884154195087e-05)apr:0.002328353841749655)opr:0.00017839329719419227)pqv:0.00011829541245525619)cuy:0.0;", "unique_ids": ["7713c8e94f-igk", "2e42f5c485-igk", "feeff50eb0-igk", "cb9b787bf3-igk", "2f6c99db02-igk", "6a1829447f-igk", "d7b2f887dc-igk", "99ec3a50a4-igk", "475a17c3bd-igk", "9cfd60a4c8-igk"], "invalid": false, "v_gene": "IGKV1D-39*01", "d_gene": "IGKDx-x*x", "j_gene": "IGKJ2*03", "cdr3_length": 36, "mut_freqs": [0.003076923076923077, 0.0, 0.0, 0.0, 0.006153846153846154, 0.003076923076923077, 0.0, 0.003076923076923077, 0.0, 0.0], "n_mutations": [1, 0, 0, 0, 2, 1, 0, 1, 0, 0], "input_seqs": ["GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCACCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAATACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTTCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAACGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAGCCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCGCTTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCATGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGATAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC"], "naive_seq": "GACATCCAGATGACCCAGTCTCCATCCTCCCTGTCTGCATCTGTAGGAGACAGAGTCACCATCACTTGCCGGGCAAGTCAGAGCATTAGCAGCTATTTAAATTGGTATCAGCAGAAACCAGGGAAAGCCCCTAAGCTCCTGATCTATGCTGCATCCAGTTTGCAAAGTGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAGTCTGCAACCTGAAGATTTTGCAACTTACTACTGTCAACAGAGTTACAGTACCCCTCCGTACAGTTTTGGCCAGGGGACCAAGCTGGAGATCAAAC", "duplicates": [[], [], [], [], [], [], [], [], [], []], "v_3p_del": 0, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 1, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, false, true, true, true, true], "stops": [false, false, false, false, false, true, false, false, false, true], "paired-uids": [["7713c8e94f-igh"], ["2e42f5c485-igh"], ["feeff50eb0-igh"], ["cb9b787bf3-igh"], ["2f6c99db02-igh"], ["6a1829447f-igh"], ["d7b2f887dc-igh"], ["3de3240f4c-igh", "3de3240f4c-igl", "99ec3a50a4-igh"], ["475a17c3bd-igh", "4e6de5d38d-igh", "4e6de5d38d-igl"], ["9cfd60a4c8-igh"]], "loci": ["igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk", "igk"], "codon_positions": {"v": 261, "j": 294}}]}
test/paired/new-results/test/simu/igl.yaml ADDED
@@ -0,0 +1 @@
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igl", "functionalities": {}, "seqs": {"v": {"IGLV1-40*01": "CAGTCTGTGCTGACGCAGCCGCCCTCAGTGTCTGGGGCCCCAGGGCAGAGGGTCACCATCTCCTGCACTGGGAGCAGCTCCAACATCGGGGCAGGTTATGATGTACACTGGTACCAGCAGCTTCCAGGAACAGCCCCCAAACTCCTCATCTATGGTAACAGCAATCGGCCCTCAGGGGTCCCTGACCGATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCACTGGGCTCCAGGCTGAGGATGAGGCTGATTATTACTGCCAGTCCTATGACAGCAGCCTGAGTGGTTC", "IGLV1-51*02": "CAGTCTGTGTTGACGCAGCCGCCCTCAGTGTCTGCGGCCCCAGGACAGAAGGTCACCATCTCCTGCTCTGGAAGCAGCTCCAACATTGGGAATAATTATGTATCCTGGTACCAGCAGCTCCCAGGAACAGCCCCCAAACTCCTCATCTATGAAAATAATAAGCGACCCTCAGGGATTCCTGACCGATTCTCTGGCTCCAAGTCTGGCACGTCAGCCACCCTGGGCATCACCGGACTCCAGACTGGGGACGAGGCCGATTATTACTGCGGAACATGGGATAGCAGCCTGAGTGCTGG", "IGLV2-14*04": "CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGACGTTGGTGGTTATAACTATGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGATGTCAGTAATCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACCATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCAGCTCATATACAAGCAGCAGCACTCTC", "IGLV2-23*02": "CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGATGTTGGGAGTTATAACCTTGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGAGGTCAGTAAGCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACAATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCTGCTCATATGCAGGTAGTAGCACTTTC", "IGLV3-1*01": "TCCTATGAGCTGACTCAGCCACCCTCAGTGTCCGTGTCCCCAGGACAGACAGCCAGCATCACCTGCTCTGGAGATAAATTGGGGGATAAATATGCTTGCTGGTATCAGCAGAAGCCAGGCCAGTCCCCTGTGCTGGTCATCTATCAAGATAGCAAGCGGCCCTCAGGGATCCCTGAGCGATTCTCTGGCTCCAACTCTGGGAACACAGCCACTCTGACCATCAGCGGGACCCAGGCTATGGATGAGGCTGACTATTACTGTCAGGCGTGGGACAGCAGCACTGCA", "IGLV3-19*01": "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCACATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACTATTACTGTAACTCCCGGGACAGCAGTGGTAACCATCT", "IGLV3-27*01": "TCCTATGAGCTGACACAGCCATCCTCAGTGTCAGTGTCTCCGGGACAGACAGCCAGGATCACCTGCTCAGGAGATGTACTGGCAAAAAAATATGCTCGGTGGTTCCAGCAGAAGCCAGGCCAGGCCCCTGTGCTGGTGATTTATAAAGACAGTGAGCGGCCCTCAGGGATCCCTGAGCGATTCTCCGGCTCCAGCTCAGGGACCACAGTCACCTTGACCATCAGCGGGGCCCAGGTTGAGGATGAGGCTGACTATTACTGTTACTCTGCGGCTGACAACAATCT", "IGLV4-60*03": "CAGCCTGTGCTGACTCAATCATCCTCTGCCTCTGCTTCCCTGGGATCCTCGGTCAAGCTCACCTGCACTCTGAGCAGTGGGCACAGTAGCTACATCATCGCATGGCATCAGCAGCAGCCAGGGAAGGCCCCTCGGTACTTGATGAAGCTTGAAGGTAGTGGAAGCTACAACAAGGGGAGCGGAGTTCCTGATCGCTTCTCAGGCTCCAGCTCTGGGGCTGACCGCTACCTCACCATCTCCAACCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGAGACCTGGGACAGTAACACTCA", "IGLV7-46*04": "CAGGCTGTGGTGACTCAGGAGCCCTCACTGACTGTGTCCCCAGGAGGGACAGTCACTCTCACCTGTGGCTCCAGCACTGGAGCTGTCACCAGTGGTCATTATCCCTACTGGTTCCAGCAGAAGCCTGGCCAAGCCCCCAGGACACTGATTTATGATACAAGCAACAAACACTCCTGGACCCCTGCCCGGTTCTCAGGCTCCCTCCTTGGGGGCAAAGCTGCCCTGACCCTTTCGGGTGCGCAGCCTGAGGATGAGGCTGAGTATTACTGCTTGCTCTCCTATAGTGGTGCTCGG", "IGLV8-61*01": "CAGACTGTGGTGACCCAGGAGCCATCGTTCTCAGTGTCCCCTGGAGGGACAGTCACACTCACTTGTGGCTTGAGCTCTGGCTCAGTCTCTACTAGTTACTACCCCAGCTGGTACCAGCAGACCCCAGGCCAGGCTCCACGCACGCTCATCTACAGCACAAACACTCGCTCTTCTGGGGTCCCTGATCGCTTCTCTGGCTCCATCCTTGGGAACAAAGCTGCCCTCACCATCACGGGGGCCCAGGCAGATGATGAATCTGATTATTACTGTGTGCTGTATATGGGTAGTGGCATTTC"}, "d": {"IGLDx-x*x": "A"}, "j": {"IGLJ1*01": "TTATGTCTTCGGAACTGGGACCAAGGTCACCGTCCTAG", "IGLJ2*01": "TGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "IGLJ3*02": "TTGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG"}}, "cyst-positions": {"IGLV8-61*01": 267, "IGLV2-14*04": 267, "IGLV4-60*03": 273, "IGLV2-23*02": 267, "IGLV1-40*01": 267, "IGLV3-1*01": 258, "IGLV1-51*02": 264, "IGLV7-46*04": 267, "IGLV3-27*01": 258, "IGLV3-19*01": 258}, "phen-positions": {"IGLJ1*01": 7, "IGLJ2*01": 7, "IGLJ3*02": 7}}, "partitions": [{"logprob": 0.0, "n_clusters": 3, "n_procs": 1, "partition": [["83cd33d783-igl", "24174ebdc9-igl", "da96f2c471-igl", "2d29c65222-igl", "8828e95dd5-igl", "f74e482a75-igl", "02c4dcf740-igl", "4e6de5d38d-igl"], ["3de3240f4c-igl"], ["94040b8e55-igl"]]}], "events": [{"has_shm_indels": [false, false, false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", ""], "reco_id": "e707c96016", "tree": "[&R] ((((((4e6de5d38d-igl:0.014385310579532198,c022154f42-igl:0.014385310579532198)gis:0.0004964074451995572,da96f2c471-igl:0.014881718024511137)bkm:0.010809544345950627,(83cd33d783-igl:0.006232474664558756,(8828e95dd5-igl:0.0038041522818052244,f74e482a75-igl:0.0038041522818052244)mos:0.002428322384959696)ags:0.019458787705903004)iqr:0.0006392791972150224,24174ebdc9-igl:0.026330541570324183)ahz:0.0017632421871908318,(0e191a1e72-igl:0.024227126438608457,(2d29c65222-igl:0.02305222313544712,02c4dcf740-igl:0.02305222313544712)efn:0.0011749032947779086)clt:0.003866657319568409)buv:0.001586348043447196)alp:0.0;", "unique_ids": ["83cd33d783-igl", "24174ebdc9-igl", "da96f2c471-igl", "2d29c65222-igl", "8828e95dd5-igl", "f74e482a75-igl", "02c4dcf740-igl", "4e6de5d38d-igl"], "invalid": false, "v_gene": "IGLV3-19*01", "d_gene": "IGLDx-x*x", "j_gene": "IGLJ2*01", "cdr3_length": 39, "mut_freqs": [0.033846153846153845, 0.033846153846153845, 0.027692307692307693, 0.027692307692307693, 0.036923076923076927, 0.043076923076923075, 0.052307692307692305, 0.046153846153846156], "n_mutations": [11, 11, 9, 9, 12, 14, 17, 15], "input_seqs": ["TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGCCCTCAGGGCTCCCAGACCGATTCTCTGGCTCCAGCTCAGAAAACATAGCTTCCTTGACCATCACTGGGGCTCACGCGGAGGATGACGCTGACAATTACTGTAACTCCCGGCACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCCGTGACTGTCGCCTTGGGACAGACAGTCAGGATCACATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTATTAGCAGAAGGCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACGACTGGCCCTCAGTGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGCAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACACACAGTCAGGATCACATGCCAAGGAGACTGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAACCCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGGCCTCAGGGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGAGGCTCAGGCGGAAGATGAGGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGGCCGTCCTCG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACACCCTCAGAGGCTTTTATGCAAGCTGGTACGAGCAGAAGCCAGGACAGCCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCAGGCCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGCCCTCAGGGTTCCCAGACCGATTCTCTGGCTCCAGCTCAGAAAACATAGCTTTCCTGACCATCACTGGGGCTCAGGCGGAGGATGACGCTGACAATTACTGTAACTCCCGGCACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCATATGCCAAGGAGACAGCCTCAGAAGCTATTGTGCAAGCTGGTACCAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGCCCTCAGGGTTCCCAGACCGATTCTCTGGCTCCAGCTCAGAAAACATAGCTTCCCTGACCATCACTGGGGCTCAGGCGGAGGATCACGCTGACAATTACTGTAACTCCCGGCACAGCAGTGGTAACCATGTGGTATTCGGCGCAGGGACCAAGCTGACCGTCCTAG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGCGACAGACAGTCAGGACCACATGTCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACGAGCAGAAGCCAGGACAAGCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCGGAGCGATTCTCTGCGTCCAGCTCAGGAAAGACAGCTTCCTCGACCATCACTGGGGCTCAGGCGGAAGATGACGCTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGACAGACCAAGCTCACCGTCCTGG", "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACACACAGTCAGAATCACACGCCAAGGAGACTGCCTCAGGAGCTATTATGCAAGCTGGTACCAGCAGAAGTCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACGACCGGGCCTCAGGGGTCCCAGACCGATTCTTTGGCTCCAGCTCAGGAAACACCCCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGACTGACAATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGGCCGTCCTAG"], "naive_seq": "TCTTCTGAGCTGACTCAGGACCCTGCTGTGTCTGTGGCCTTGGGACAGACAGTCAGGATCACATGCCAAGGAGACAGCCTCAGAAGCTATTATGCAAGCTGGTACCAGCAGAAGCCAGGACAGGCCCCTGTACTTGTCATCTATGGTAAAAACAACCGGCCCTCAGGGATCCCAGACCGATTCTCTGGCTCCAGCTCAGGAAACACAGCTTCCTTGACCATCACTGGGGCTCAGGCGGAAGATGAGGCTGACTATTACTGTAACTCCCGGGACAGCAGTGGTAACCATGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "duplicates": [[], [], [], [], [], [], [], []], "v_3p_del": 3, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true], "stops": [false, true, false, false, false, false, false, false], "paired-uids": [["83cd33d783-igh"], ["24174ebdc9-igh", "8828e95dd5-igl"], ["810f8f7056-igh", "810f8f7056-igk", "da96f2c471-igh"], ["2d29c65222-igh", "96f6ea6b59-igh", "96f6ea6b59-igk"], ["24174ebdc9-igh", "24174ebdc9-igl"], ["7bfd25e622-igh", "7bfd25e622-igk", "f74e482a75-igh"], ["02c4dcf740-igh", "a1f869b08f-igh", "a1f869b08f-igk"], ["475a17c3bd-igh", "475a17c3bd-igk", "4e6de5d38d-igh"]], "loci": ["igl", "igl", "igl", "igl", "igl", "igl", "igl", "igl"], "codon_positions": {"v": 258, "j": 294}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "dd76478982", "tree": "[&R] ((88ea4d6f94-igl:-0.0,3de3240f4c-igl:-0.0)fpy:-0.0)cgn:0.0;", "unique_ids": ["3de3240f4c-igl"], "invalid": false, "v_gene": "IGLV2-14*04", "d_gene": "IGLDx-x*x", "j_gene": "IGLJ3*02", "cdr3_length": 39, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGACGTTGGTGGTTATAACTATGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGATGTCAGTAATCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACCATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCAGCTCATATACAAGCAGCAGCACTCTCAGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG"], "naive_seq": "CAGTCTGCCCTGACTCAGCCTGCCTCCGTGTCTGGGTCTCCTGGACAGTCGATCACCATCTCCTGCACTGGAACCAGCAGTGACGTTGGTGGTTATAACTATGTCTCCTGGTACCAACAGCACCCAGGCAAAGCCCCCAAACTCATGATTTATGATGTCAGTAATCGGCCCTCAGGGGTTTCTAATCGCTTCTCTGGCTCCAAGTCTGGCAACACGGCCTCCCTGACCATCTCTGGGCTCCAGGCTGAGGACGAGGCTGATTATTACTGCAGCTCATATACAAGCAGCAGCACTCTCAGGGTGTTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "duplicates": [[]], "v_3p_del": 1, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "CA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["3de3240f4c-igh", "99ec3a50a4-igh", "99ec3a50a4-igk"]], "loci": ["igl"], "codon_positions": {"v": 267, "j": 303}}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "reco_id": "da8c9d16ae", "tree": "[&R] (94040b8e55-igl:-0.0)bgr:0.0;", "unique_ids": ["94040b8e55-igl"], "invalid": false, "v_gene": "IGLV3-1*01", "d_gene": "IGLDx-x*x", "j_gene": "IGLJ2*01", "cdr3_length": 33, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["TCCTATGAGCTGACTCAGCCACCCTCAGTGTCCGTGTCCCCAGGACAGACAGCCAGCATCACCTGCTCTGGAGATAAATTGGGGGATAAATATGCTTGCTGGTATCAGCAGAAGCCAGGCCAGTCCCCTGTGCTGGTCATCTATCAAGATAGCAAGCGGCCCTCAGGGATCCCTGAGCGATTCTCTGGCTCCAACTCTGGGAACACAGCCACTCTGACCATCAGCGGGACCCAGGCTATGGATGAGGCTGACTATTACTGTCAGGCGTGGGACAGCAGCACTGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG"], "has_shm_indels": [false], "naive_seq": "TCCTATGAGCTGACTCAGCCACCCTCAGTGTCCGTGTCCCCAGGACAGACAGCCAGCATCACCTGCTCTGGAGATAAATTGGGGGATAAATATGCTTGCTGGTATCAGCAGAAGCCAGGCCAGTCCCCTGTGCTGGTCATCTATCAAGATAGCAAGCGGCCCTCAGGGATCCCTGAGCGATTCTCTGGCTCCAACTCTGGGAACACAGCCACTCTGACCATCAGCGGGACCCAGGCTATGGATGAGGCTGACTATTACTGTCAGGCGTGGGACAGCAGCACTGTGGTATTCGGCGGAGGGACCAAGCTGACCGTCCTAG", "duplicates": [[]], "v_3p_del": 2, "d_5p_del": 1, "d_3p_del": 0, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["94040b8e55-igh", "997456da00-igh", "997456da00-igk"]], "loci": ["igl"], "codon_positions": {"v": 258, "j": 288}}]}