partis-bcr 1.0.5__py3-none-any.whl → 1.0.6__py3-none-any.whl

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Files changed (137) hide show
  1. bin/partis-test.py +4 -1
  2. packages/ham/bcrham +0 -0
  3. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/partis-test.py +4 -1
  4. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.6.dist-info}/METADATA +1 -1
  5. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.6.dist-info}/RECORD +97 -137
  6. test/new-results/test/parameters/simu/hmm/all-mean-mute-freqs.csv +3 -3
  7. test/new-results/test/parameters/simu/hmm/all-mean-n-muted.csv +11 -11
  8. test/new-results/test/parameters/simu/hmm/all-probs.csv +3 -13
  9. test/new-results/test/parameters/simu/hmm/cluster_size.csv +1 -1
  10. test/new-results/test/parameters/simu/hmm/d-mean-mute-freqs.csv +6 -6
  11. test/new-results/test/parameters/simu/hmm/d-mean-n-muted.csv +3 -3
  12. test/new-results/test/parameters/simu/hmm/d_gene-d_3p_del-probs.csv +1 -6
  13. test/new-results/test/parameters/simu/hmm/d_gene-d_5p_del-probs.csv +2 -9
  14. test/new-results/test/parameters/simu/hmm/d_gene-probs.csv +1 -5
  15. test/new-results/test/parameters/simu/hmm/d_gene-vd_insertion-probs.csv +2 -10
  16. test/new-results/test/parameters/simu/hmm/dj_insertion_content.csv +4 -4
  17. test/new-results/test/parameters/simu/hmm/fv_insertion-probs.csv +2 -3
  18. test/new-results/test/parameters/simu/hmm/germline-sets/igh/extras.csv +0 -6
  19. test/new-results/test/parameters/simu/hmm/germline-sets/igh/ighd.fasta +0 -8
  20. test/new-results/test/parameters/simu/hmm/germline-sets/igh/ighj.fasta +0 -2
  21. test/new-results/test/parameters/simu/hmm/germline-sets/igh/ighv.fasta +0 -10
  22. test/new-results/test/parameters/simu/hmm/hmms/IGHD6-13_star_01.yaml +268 -267
  23. test/new-results/test/parameters/simu/hmm/hmms/IGHJ4_star_02.yaml +306 -306
  24. test/new-results/test/parameters/simu/hmm/hmms/IGHJ6_star_02.yaml +284 -284
  25. test/new-results/test/parameters/simu/hmm/hmms/IGHV3-66_star_02.yaml +1191 -1191
  26. test/new-results/test/parameters/simu/hmm/hmms/IGHV3-7_star_05.yaml +2 -2
  27. test/new-results/test/parameters/simu/hmm/j-mean-mute-freqs.csv +5 -5
  28. test/new-results/test/parameters/simu/hmm/j-mean-n-muted.csv +4 -4
  29. test/new-results/test/parameters/simu/hmm/j_gene-dj_insertion-probs.csv +2 -9
  30. test/new-results/test/parameters/simu/hmm/j_gene-j_3p_del-probs.csv +1 -2
  31. test/new-results/test/parameters/simu/hmm/j_gene-j_5p_del-probs.csv +2 -7
  32. test/new-results/test/parameters/simu/hmm/j_gene-probs.csv +1 -2
  33. test/new-results/test/parameters/simu/hmm/jf_insertion-probs.csv +1 -1
  34. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD6-13_star_01.csv +13 -16
  35. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHJ4_star_02.csv +40 -44
  36. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHJ6_star_02.csv +0 -2
  37. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV3-66_star_02.csv +291 -293
  38. test/new-results/test/parameters/simu/hmm/seq_content.csv +4 -4
  39. test/new-results/test/parameters/simu/hmm/v-mean-mute-freqs.csv +3 -3
  40. test/new-results/test/parameters/simu/hmm/v-mean-n-muted.csv +7 -7
  41. test/new-results/test/parameters/simu/hmm/v_gene-probs.csv +1 -6
  42. test/new-results/test/parameters/simu/hmm/v_gene-v_3p_del-probs.csv +1 -7
  43. test/new-results/test/parameters/simu/hmm/v_gene-v_5p_del-probs.csv +1 -6
  44. test/new-results/test/parameters/simu/hmm/vd_insertion_content.csv +4 -4
  45. test/new-results/test/parameters/simu/sw/all-mean-mute-freqs.csv +3 -3
  46. test/new-results/test/parameters/simu/sw/all-mean-n-muted.csv +8 -8
  47. test/new-results/test/parameters/simu/sw/all-probs.csv +1 -9
  48. test/new-results/test/parameters/simu/sw/cluster_size.csv +1 -1
  49. test/new-results/test/parameters/simu/sw/d-mean-mute-freqs.csv +5 -5
  50. test/new-results/test/parameters/simu/sw/d-mean-n-muted.csv +3 -3
  51. test/new-results/test/parameters/simu/sw/d_gene-d_3p_del-probs.csv +1 -7
  52. test/new-results/test/parameters/simu/sw/d_gene-d_5p_del-probs.csv +1 -7
  53. test/new-results/test/parameters/simu/sw/d_gene-probs.csv +1 -5
  54. test/new-results/test/parameters/simu/sw/d_gene-vd_insertion-probs.csv +1 -8
  55. test/new-results/test/parameters/simu/sw/dj_insertion_content.csv +4 -4
  56. test/new-results/test/parameters/simu/sw/fv_insertion-probs.csv +1 -1
  57. test/new-results/test/parameters/simu/sw/germline-sets/igh/extras.csv +0 -6
  58. test/new-results/test/parameters/simu/sw/germline-sets/igh/ighd.fasta +0 -8
  59. test/new-results/test/parameters/simu/sw/germline-sets/igh/ighj.fasta +0 -2
  60. test/new-results/test/parameters/simu/sw/germline-sets/igh/ighv.fasta +0 -10
  61. test/new-results/test/parameters/simu/sw/hmms/IGHD6-13_star_01.yaml +268 -267
  62. test/new-results/test/parameters/simu/sw/hmms/IGHJ4_star_02.yaml +306 -306
  63. test/new-results/test/parameters/simu/sw/hmms/IGHJ6_star_02.yaml +22 -22
  64. test/new-results/test/parameters/simu/sw/hmms/IGHV3-66_star_02.yaml +1191 -1191
  65. test/new-results/test/parameters/simu/sw/hmms/IGHV3-7_star_05.yaml +2 -2
  66. test/new-results/test/parameters/simu/sw/j-mean-mute-freqs.csv +4 -4
  67. test/new-results/test/parameters/simu/sw/j-mean-n-muted.csv +3 -3
  68. test/new-results/test/parameters/simu/sw/j_gene-dj_insertion-probs.csv +1 -7
  69. test/new-results/test/parameters/simu/sw/j_gene-j_3p_del-probs.csv +1 -2
  70. test/new-results/test/parameters/simu/sw/j_gene-j_5p_del-probs.csv +1 -7
  71. test/new-results/test/parameters/simu/sw/j_gene-probs.csv +1 -2
  72. test/new-results/test/parameters/simu/sw/jf_insertion-probs.csv +1 -1
  73. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD6-13_star_01.csv +13 -16
  74. test/new-results/test/parameters/simu/sw/mute-freqs/IGHJ4_star_02.csv +40 -48
  75. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV3-66_star_02.csv +291 -293
  76. test/new-results/test/parameters/simu/sw/seq_content.csv +4 -4
  77. test/new-results/test/parameters/simu/sw/v-mean-mute-freqs.csv +3 -3
  78. test/new-results/test/parameters/simu/sw/v-mean-n-muted.csv +7 -7
  79. test/new-results/test/parameters/simu/sw/v_gene-probs.csv +1 -6
  80. test/new-results/test/parameters/simu/sw/v_gene-v_3p_del-probs.csv +1 -7
  81. test/new-results/test/parameters/simu/sw/v_gene-v_5p_del-probs.csv +1 -6
  82. test/new-results/test/parameters/simu/sw/vd_insertion_content.csv +4 -4
  83. test/new-results/test/parameters/simu/sw-cache.yaml +1 -1
  84. test/new-results/test.log +24 -258
  85. test/test.py +4 -1
  86. test/new-results/test/parameters/simu/hmm/hmms/IGHD1-20_star_01.yaml +0 -449
  87. test/new-results/test/parameters/simu/hmm/hmms/IGHD3-16_star_02.yaml +0 -870
  88. test/new-results/test/parameters/simu/hmm/hmms/IGHD3-22_star_01.yaml +0 -744
  89. test/new-results/test/parameters/simu/hmm/hmms/IGHD6-19_star_01.yaml +0 -534
  90. test/new-results/test/parameters/simu/hmm/hmms/IGHJ1_star_01.yaml +0 -986
  91. test/new-results/test/parameters/simu/hmm/hmms/IGHV1-18_star_01.yaml +0 -4484
  92. test/new-results/test/parameters/simu/hmm/hmms/IGHV3-23_star_01.yaml +0 -4484
  93. test/new-results/test/parameters/simu/hmm/hmms/IGHV4-4_star_09.yaml +0 -4438
  94. test/new-results/test/parameters/simu/hmm/hmms/IGHV4-61_star_01.yaml +0 -4529
  95. test/new-results/test/parameters/simu/hmm/hmms/IGHV5-51_star_01.yaml +0 -4484
  96. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD1-20_star_01.csv +0 -9
  97. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD3-16_star_02.csv +0 -30
  98. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD3-22_star_01.csv +0 -32
  99. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD6-19_star_01.csv +0 -22
  100. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHJ1_star_01.csv +0 -50
  101. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV1-18_star_01.csv +0 -297
  102. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV3-23_star_01.csv +0 -297
  103. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV4-4_star_09.csv +0 -291
  104. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV4-61_star_01.csv +0 -300
  105. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV5-51_star_01.csv +0 -296
  106. test/new-results/test/parameters/simu/sw/hmms/IGHD1-20_star_01.yaml +0 -449
  107. test/new-results/test/parameters/simu/sw/hmms/IGHD3-16_star_02.yaml +0 -870
  108. test/new-results/test/parameters/simu/sw/hmms/IGHD3-22_star_01.yaml +0 -744
  109. test/new-results/test/parameters/simu/sw/hmms/IGHD6-19_star_01.yaml +0 -534
  110. test/new-results/test/parameters/simu/sw/hmms/IGHJ1_star_01.yaml +0 -986
  111. test/new-results/test/parameters/simu/sw/hmms/IGHV1-18_star_01.yaml +0 -4484
  112. test/new-results/test/parameters/simu/sw/hmms/IGHV3-23_star_01.yaml +0 -4484
  113. test/new-results/test/parameters/simu/sw/hmms/IGHV4-4_star_09.yaml +0 -4438
  114. test/new-results/test/parameters/simu/sw/hmms/IGHV4-61_star_01.yaml +0 -4529
  115. test/new-results/test/parameters/simu/sw/hmms/IGHV5-51_star_01.yaml +0 -4484
  116. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD1-20_star_01.csv +0 -9
  117. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD3-16_star_02.csv +0 -30
  118. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD3-22_star_01.csv +0 -32
  119. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD6-19_star_01.csv +0 -20
  120. test/new-results/test/parameters/simu/sw/mute-freqs/IGHJ1_star_01.csv +0 -50
  121. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV1-18_star_01.csv +0 -297
  122. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV3-23_star_01.csv +0 -297
  123. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV4-4_star_09.csv +0 -291
  124. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV4-61_star_01.csv +0 -300
  125. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV5-51_star_01.csv +0 -296
  126. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/cf-alleles.py +0 -0
  127. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/cf-germlines.py +0 -0
  128. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/compare-plotdirs.py +0 -0
  129. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/extract-pairing-info.py +0 -0
  130. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/gctree-run.py +0 -0
  131. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/get-naive-probabilities.py +0 -0
  132. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/parse-output.py +0 -0
  133. {partis_bcr-1.0.5.data → partis_bcr-1.0.6.data}/scripts/split-loci.py +0 -0
  134. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.6.dist-info}/WHEEL +0 -0
  135. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.6.dist-info}/entry_points.txt +0 -0
  136. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.6.dist-info}/licenses/COPYING +0 -0
  137. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.6.dist-info}/top_level.txt +0 -0
test/new-results/test/parameters/simu/sw/seq_content.csv CHANGED
@@ -1,5 +1,5 @@
1
1
  seq_content,count
2
- A,2932
3
- C,3445
4
- G,3948
5
- T,2762
2
+ A,807
3
+ C,886
4
+ G,1111
5
+ T,755
test/new-results/test/parameters/simu/sw/v-mean-mute-freqs.csv CHANGED
@@ -1,8 +1,8 @@
1
1
  bin_low_edge,contents,binlabel,error
2
2
  -0.01,0.0,,0.0
3
- 0.0,0.4166666666666667,,0.10758287072798381
4
- 0.01,0.4722222222222222,,0.1145307118227128
5
- 0.02,0.1111111111111111,,0.05555555555555555
3
+ 0.0,0.0,,0.0
4
+ 0.01,0.7,,0.2645751311064591
5
+ 0.02,0.3,,0.17320508075688773
6
6
  0.03,0.0,,0.0
7
7
  0.04,0.0,,0.0
8
8
  0.05,0.0,,0.0
test/new-results/test/parameters/simu/sw/v-mean-n-muted.csv CHANGED
@@ -1,12 +1,12 @@
1
1
  bin_low_edge,contents,binlabel,error
2
2
  -1.5,0.0,,0.0
3
- -0.5,10.0,,3.1622776601683795
4
- 0.5,3.0,,1.7320508075688772
5
- 1.5,2.0,,1.4142135623730951
6
- 2.5,7.0,,2.6457513110645907
7
- 3.5,7.0,,2.6457513110645907
8
- 4.5,3.0,,1.7320508075688772
9
- 5.5,3.0,,1.7320508075688772
3
+ -0.5,0.0,,0.0
4
+ 0.5,0.0,,0.0
5
+ 1.5,0.0,,0.0
6
+ 2.5,2.0,,1.4142135623730951
7
+ 3.5,4.0,,2.0
8
+ 4.5,1.0,,1.0
9
+ 5.5,2.0,,1.4142135623730951
10
10
  6.5,1.0,,1.0
11
11
  7.5,0.0,,0.0
12
12
  8.5,0.0,,0.0
test/new-results/test/parameters/simu/sw/v_gene-probs.csv CHANGED
@@ -1,8 +1,3 @@
1
1
  v_gene,count
2
2
  IGHV3-7*05,3
3
- IGHV3-66*02,14
4
- IGHV4-4*09,1
5
- IGHV1-18*01,7
6
- IGHV3-23*01,2
7
- IGHV4-61*01,8
8
- IGHV5-51*01,1
3
+ IGHV3-66*02,7
test/new-results/test/parameters/simu/sw/v_gene-v_3p_del-probs.csv CHANGED
@@ -1,9 +1,3 @@
1
1
  v_3p_del,v_gene,count
2
2
  0,IGHV3-7*05,3
3
- 2,IGHV3-66*02,13
4
- 3,IGHV4-4*09,1
5
- 0,IGHV1-18*01,7
6
- 0,IGHV3-23*01,2
7
- 0,IGHV4-61*01,8
8
- 1,IGHV5-51*01,1
9
- 0,IGHV3-66*02,1
3
+ 2,IGHV3-66*02,7
test/new-results/test/parameters/simu/sw/v_gene-v_5p_del-probs.csv CHANGED
@@ -1,8 +1,3 @@
1
1
  v_5p_del,v_gene,count
2
2
  0,IGHV3-7*05,3
3
- 0,IGHV3-66*02,14
4
- 0,IGHV4-4*09,1
5
- 0,IGHV1-18*01,7
6
- 0,IGHV3-23*01,2
7
- 0,IGHV4-61*01,8
8
- 0,IGHV5-51*01,1
3
+ 0,IGHV3-66*02,7
test/new-results/test/parameters/simu/sw/vd_insertion_content.csv CHANGED
@@ -1,5 +1,5 @@
1
1
  vd_insertion_content,count
2
- A,18
3
- C,64
4
- G,25
5
- T,38
2
+ A,3
3
+ C,14
4
+ G,6
5
+ T,10
test/new-results/test/parameters/simu/sw-cache.yaml CHANGED
@@ -1 +1 @@
1
- {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV1-18*01": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV3-23*01": "GAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGA", "IGHV3-66*02": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*05": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-4*09": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTACATCTATACCAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV4-61*01": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV5-51*01": "GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGCGAGACA"}, "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", "IGHD2-2*01": "AGGATATTGTAGTAGTACCAGCTGCTATGCC", "IGHD2-2*02": "AGGATATTGTAGTAGTACCAGCTGCTATACC", "IGHD2-21*01": "AGCATATTGTGGTGGTGATTGCTATTCC", "IGHD2-21*02": "AGCATATTGTGGTGGTGACTGCTATTCC", "IGHD2-8*01": "AGGATATTGTACTAATGGTGTATGCTATACC", "IGHD2-8*02": "AGGATATTGTACTGGTGGTGTATGCTATACC", "IGHD3-10*01": "GTATTACTATGGTTCGGGGAGTTATTATAAC", "IGHD3-10*03": "GTATTACTATGGTTCAGGGAGTTATTATAAC", "IGHD3-16*02": "GTATTATGATTACGTTTGGGGGAGTTATCGTTATACC", "IGHD3-16*03": "GTATTATGATTACATTTGGGGGAGTTATCGTTATACC", "IGHD3-22*01": "GTATTACTATGATAGTAGTGGTTATTACTAC", "IGHD3-3*01": "GTATTACGATTTTTGGAGTGGTTATTATACC", "IGHD3-9*01": "GTATTACGATATTTTGACTGGTTATTATAAC", "IGHD4-17*01": "TGACTACGGTGACTAC", "IGHD4-23*01": "TGACTACGGTGGTAACTCC", "IGHD4-4*01": "TGACTACAGTAACTAC", "IGHD5-12*01": "GTGGATATAGTGGCTACGATTAC", "IGHD5-18*02": "GTGAATATAGTGGCTACGATTAC", "IGHD5-24*01": "GTAGAGATGGCTACAATTAC", "IGHD5-5*01": "GTGGATACAGCTATGGTTAC", "IGHD6-13*01": "GGGTATAGCAGCAGCTGGTAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC", "IGHD6-25*01": "GGGTATAGCAGCGGCTAC", "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", "IGHJ6*03": "ATTACTACTACTACTACTACATGGACGTCTGGGGCAAAGGGACCACGGTCACCGTCTCCTCAG"}}, "cyst-positions": {"IGHV1-18*01": 285, "IGHV3-7*05": 285, "IGHV5-51*01": 285, "IGHV3-66*02": 282, "IGHV3-23*01": 285, "IGHV4-61*01": 288, "IGHV4-4*09": 282}, "tryp-positions": {"IGHJ4*02": 14, "IGHJ2*01": 19, "IGHJ3*02": 16, "IGHJ6*02": 29, "IGHJ5*02": 17, "IGHJ1*01": 18, "IGHJ6*03": 29}}, "partitions": [{"logprob": 0.0, "n_clusters": 36, "n_procs": 1, "partition": [["16df39683f"], ["6e208eca11"], ["7f6d2ba874"], ["8024ed1a22"], ["18f4019708"], ["ee25049b92"], ["efdea248af"], ["5fb484a8a6"], ["9c3cedb840"], ["648902c3e5"], ["f47122f1f5"], ["308de1d739"], ["401a542698"], ["20a0129b57"], ["91796617a0"], ["4233d708fe"], ["97366cf0d8"], ["13de8675ec"], ["33aaa62e12"], ["31e052ee14"], ["226be79d5f"], ["188e1a0235"], ["bf50fa2017"], ["73d6c6e558"], ["162cb1691f"], ["d8761c689a"], ["c8a90cc3d7"], ["17f57acf2e"], ["948b83fb4d"], ["73431a9b10"], ["93c01dd961"], ["c761732a8b"], ["d024e5cab0"], ["822801f8ab"], ["e64fcd9e03"], ["adc41b4237"]]}], "events": [{"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["16df39683f"], "invalid": false, "v_gene": "IGHV3-7*05", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ6*02", "cdr3_length": 63, "mut_freqs": [0.0158311345646438], "n_mutations": [6], "input_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTAAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGGGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATATTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGATCCGAAGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 0, "j_5p_del": 17, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTGCGA", "dj_insertion": "CTATTCTAAGTTGCGTGAG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "loci": ["igh"], "codon_positions": {"v": 285, "j": 345}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 18, "min": 16, "max": 38}, "all_matches": [{"v": {"IGHV3-7*05": {"score": 1420, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-13*01": {"score": 60, "glbounds": [9, 21], "qrbounds": [302, 314]}, "IGHD6-6*01": {"score": 40, "glbounds": [6, 16], "qrbounds": [302, 312]}, "IGHD6-19*01": {"score": 40, "glbounds": [13, 21], "qrbounds": [306, 314]}, "IGHD6-25*01": {"score": 40, "glbounds": [6, 18], "qrbounds": [302, 314]}, "IGHD2-15*01": {"score": 35, "glbounds": [19, 28], "qrbounds": [305, 314]}}, "j": {"IGHJ6*02": {"score": 230, "glbounds": [17, 63], "qrbounds": [333, 379]}, "IGHJ6*03": {"score": 205, "glbounds": [20, 63], "qrbounds": [336, 379]}}}], "padlefts": [""], "padrights": [""]}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["6e208eca11"], "invalid": false, "v_gene": "IGHV3-7*05", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ6*02", "cdr3_length": 63, "mut_freqs": [0.021108179419525065], "n_mutations": [8], "input_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGCGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAAGGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATATTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAAGACACGGCCGTGTATTACTGTGCTAGAGACTGCGAAGCAGCTGGTACCTGTTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGACAAGGGACCACGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTGTTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 0, "j_5p_del": 17, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTGCGA", "dj_insertion": "CTGTTCTAAGTTGCGTGAG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "loci": ["igh"], "codon_positions": {"v": 285, "j": 345}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 18, "min": 16, "max": 38}, "all_matches": [{"v": {"IGHV3-7*05": {"score": 1410, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-13*01": {"score": 60, "glbounds": [9, 21], "qrbounds": [302, 314]}, "IGHD6-6*01": {"score": 40, "glbounds": [6, 16], "qrbounds": [302, 312]}, "IGHD6-25*01": {"score": 40, "glbounds": [6, 18], "qrbounds": [302, 314]}, "IGHD6-19*01": {"score": 40, "glbounds": [13, 21], "qrbounds": [306, 314]}, "IGHD2-15*01": {"score": 35, "glbounds": [15, 24], "qrbounds": [308, 317]}}, "j": {"IGHJ6*02": {"score": 220, "glbounds": [17, 63], "qrbounds": [333, 379]}, "IGHJ6*03": {"score": 195, "glbounds": [20, 63], "qrbounds": [336, 379]}}}], "padlefts": [""], "padrights": [""]}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["7f6d2ba874"], "invalid": false, "v_gene": "IGHV3-7*05", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ6*02", "cdr3_length": 63, "mut_freqs": [0.010554089709762533], "n_mutations": [4], "input_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATGTTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAAGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 0, "j_5p_del": 17, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTGCGA", "dj_insertion": "CTATTCTAAGTTGCGTGAG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "loci": ["igh"], "codon_positions": {"v": 285, "j": 345}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 18, "min": 16, "max": 38}, "all_matches": [{"v": {"IGHV3-7*05": {"score": 1440, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-13*01": {"score": 60, "glbounds": [9, 21], "qrbounds": [302, 314]}, "IGHD6-6*01": {"score": 40, "glbounds": [6, 16], "qrbounds": [302, 312]}, "IGHD6-19*01": {"score": 40, "glbounds": [13, 21], "qrbounds": [306, 314]}, "IGHD6-25*01": {"score": 40, "glbounds": [6, 18], "qrbounds": [302, 314]}, "IGHD2-15*01": {"score": 35, "glbounds": [19, 28], "qrbounds": [305, 314]}}, "j": {"IGHJ6*02": {"score": 230, "glbounds": [17, 63], "qrbounds": [333, 379]}, "IGHJ6*03": {"score": 205, "glbounds": [20, 63], "qrbounds": [336, 379]}}}], "padlefts": [""], "padrights": [""]}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["8024ed1a22"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.011560693641618497], "n_mutations": [4], "input_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 2, "d_5p_del": 3, "d_3p_del": 6, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TC", "dj_insertion": "C", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "loci": ["igh"], "codon_positions": {"v": 282, "j": 312}, "k_v": {"best": 291, "min": 291, "max": 292}, "k_d": {"best": 14, "min": 10, "max": 15}, "all_matches": [{"v": {"IGHV3-66*02": {"score": 1425, "glbounds": [0, 291], "qrbounds": [0, 291]}}, "d": {"IGHD6-13*01": {"score": 60, "glbounds": [3, 15], "qrbounds": [293, 305]}, "IGHD6-25*01": {"score": 50, "glbounds": [3, 15], "qrbounds": [293, 305]}, "IGHD6-6*01": {"score": 45, "glbounds": [3, 12], "qrbounds": [293, 302]}, "IGHD6-19*01": {"score": 40, "glbounds": [3, 11], "qrbounds": [293, 301]}, "IGHD1-26*01": {"score": 30, "glbounds": [2, 14], "qrbounds": [293, 305]}}, "j": {"IGHJ4*02": {"score": 190, "glbounds": [8, 48], "qrbounds": [306, 346]}, "IGHJ5*02": {"score": 175, "glbounds": [10, 51], "qrbounds": [305, 346]}}}], "padlefts": [""], "padrights": [""]}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["18f4019708"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.02023121387283237], "n_mutations": [7], "input_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGACGGCTTGGTCCAGCCTGGGGGGTGCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCTAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGCCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 2, "d_5p_del": 3, "d_3p_del": 6, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TC", "dj_insertion": "C", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "loci": ["igh"], "codon_positions": {"v": 282, "j": 312}, "k_v": {"best": 291, "min": 291, "max": 292}, "k_d": {"best": 14, "min": 10, "max": 15}, "all_matches": [{"v": {"IGHV3-66*02": {"score": 1405, "glbounds": [0, 291], "qrbounds": [0, 291]}}, "d": {"IGHD6-13*01": {"score": 60, "glbounds": [3, 15], "qrbounds": [293, 305]}, "IGHD6-25*01": {"score": 50, "glbounds": [3, 15], "qrbounds": [293, 305]}, "IGHD6-6*01": {"score": 45, "glbounds": [3, 12], "qrbounds": [293, 302]}, "IGHD6-19*01": {"score": 40, "glbounds": [3, 11], "qrbounds": [293, 301]}, "IGHD1-26*01": {"score": 30, "glbounds": [2, 14], "qrbounds": [293, 305]}}, "j": {"IGHJ4*02": {"score": 180, "glbounds": [8, 48], "qrbounds": [306, 346]}, "IGHJ5*02": {"score": 165, "glbounds": [10, 51], "qrbounds": [305, 346]}}}], "padlefts": [""], "padrights": [""]}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["ee25049b92"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.023121387283236993], "n_mutations": [8], "input_seqs": ["GAGGTGCAGCTCGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGACACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 2, "d_5p_del": 3, "d_3p_del": 6, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TC", "dj_insertion": "C", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": 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"CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 5, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCCTCGCA", "dj_insertion": "TCCCT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "loci": ["igh"], "codon_positions": {"v": 285, "j": 333}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 23, "min": 19, "max": 29}, "all_matches": [{"v": {"IGHV1-18*01": {"score": 1480, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-13*01": {"score": 70, "glbounds": [2, 16], 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["CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 5, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCCTCGCA", "dj_insertion": "TCCCT", "fv_insertion": "", "jf_insertion": 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{"score": 185, "glbounds": [8, 51], "qrbounds": [324, 367]}}}], "padlefts": [""], "padrights": [""]}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["97366cf0d8"], "invalid": false, "v_gene": "IGHV1-18*01", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 51, "mut_freqs": [0.0027247956403269754], "n_mutations": [1], "input_seqs": ["CAGGTTCAGCTGGTTCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 5, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCCTCGCA", "dj_insertion": "TCCCT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "loci": ["igh"], "codon_positions": {"v": 285, "j": 333}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 23, "min": 19, "max": 29}, "all_matches": [{"v": {"IGHV1-18*01": {"score": 1470, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-13*01": {"score": 70, "glbounds": [2, 16], 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["CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 5, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCCTCGCA", "dj_insertion": "TCCCT", "fv_insertion": "", "jf_insertion": 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["CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["33aaa62e12"], "invalid": false, "v_gene": "IGHV1-18*01", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 51, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTAAGCTGTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 5, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCCTCGCA", "dj_insertion": "TCCCT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [false], "stops": [true], "loci": ["igh"], "codon_positions": {"v": 285, "j": 333}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 23, "min": 19, "max": 29}, "all_matches": [{"v": {"IGHV1-18*01": {"score": 1480, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-13*01": {"score": 70, "glbounds": [2, 16], 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["CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGG...CTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["31e052ee14"], "invalid": false, "v_gene": "IGHV1-18*01", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 51, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGGACCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 5, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCCCTCGCA", "dj_insertion": "TCCCT", "fv_insertion": "", 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["GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGGGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTCTCCTGGTGACTCTGATGCCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGCGAGACTAGGGTATAGCAGTGGCTGGTACTCGTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGACTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGCGAGACTAGGGTATAGCAGTGGCTGGTACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 1, "d_5p_del": 0, "d_3p_del": 2, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TA", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", 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"unique_ids": ["adc41b4237"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 57, "mut_freqs": [0.013513513513513514], "n_mutations": [5], "input_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTGCATGAGCTGGGTCCGCCAGGCTCCACGGGAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAAGACGCTGTATCTTCAAATGAACAGCCTGAGACCTGAGGACACGGCTGTGTATTACTGTGCGAGAGAGTTTTGTGTCGGCAGGAGTATAGCAGCAGGGCGCCCTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAGAGTTTTGTGTCGGCAGGAGTATAGCAGCAGGGCGCCCTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 2, "d_3p_del": 7, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GTTTTGTGTCGGCAGGA", "dj_insertion": "GGCGCCC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "loci": ["igh"], "codon_positions": {"v": 282, "j": 336}, "k_v": {"best": 293, "min": 293, "max": 294}, "k_d": {"best": 29, "min": 23, "max": 37}, "all_matches": [{"v": {"IGHV3-66*02": {"score": 1415, "glbounds": [0, 293], "qrbounds": [0, 293]}}, "d": {"IGHD6-13*01": {"score": 60, "glbounds": [2, 14], "qrbounds": [310, 322]}, "IGHD6-6*01": {"score": 60, "glbounds": [0, 12], "qrbounds": [308, 320]}, "IGHD6-25*01": {"score": 50, "glbounds": [2, 12], "qrbounds": [310, 320]}, "IGHD6-19*01": {"score": 45, "glbounds": [2, 11], "qrbounds": [310, 319]}, "IGHD5-18*02": {"score": 30, "glbounds": [2, 10], "qrbounds": [308, 316]}}, "j": {"IGHJ4*02": {"score": 205, "glbounds": [7, 48], "qrbounds": [329, 370]}, "IGHJ5*02": {"score": 180, "glbounds": [11, 51], "qrbounds": [330, 370]}}}], "padlefts": [""], "padrights": [""]}]}
1
+ {"version-info": {"partis-yaml": 0.1, "partis-git": ""}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV3-66*02": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*05": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGA"}, "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", "IGHD2-2*01": "AGGATATTGTAGTAGTACCAGCTGCTATGCC", "IGHD2-2*02": "AGGATATTGTAGTAGTACCAGCTGCTATACC", "IGHD2-21*01": "AGCATATTGTGGTGGTGATTGCTATTCC", "IGHD2-21*02": "AGCATATTGTGGTGGTGACTGCTATTCC", "IGHD2-8*01": "AGGATATTGTACTAATGGTGTATGCTATACC", "IGHD2-8*02": "AGGATATTGTACTGGTGGTGTATGCTATACC", "IGHD3-10*01": "GTATTACTATGGTTCGGGGAGTTATTATAAC", "IGHD3-10*03": "GTATTACTATGGTTCAGGGAGTTATTATAAC", "IGHD3-16*02": "GTATTATGATTACGTTTGGGGGAGTTATCGTTATACC", "IGHD3-16*03": "GTATTATGATTACATTTGGGGGAGTTATCGTTATACC", "IGHD3-22*01": "GTATTACTATGATAGTAGTGGTTATTACTAC", "IGHD3-3*01": "GTATTACGATTTTTGGAGTGGTTATTATACC", "IGHD3-9*01": "GTATTACGATATTTTGACTGGTTATTATAAC", "IGHD4-17*01": "TGACTACGGTGACTAC", "IGHD4-23*01": "TGACTACGGTGGTAACTCC", "IGHD4-4*01": "TGACTACAGTAACTAC", "IGHD5-12*01": "GTGGATATAGTGGCTACGATTAC", "IGHD5-18*02": "GTGAATATAGTGGCTACGATTAC", "IGHD5-24*01": "GTAGAGATGGCTACAATTAC", "IGHD5-5*01": "GTGGATACAGCTATGGTTAC", "IGHD6-13*01": "GGGTATAGCAGCAGCTGGTAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC", "IGHD6-25*01": "GGGTATAGCAGCGGCTAC", "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", "IGHJ6*03": "ATTACTACTACTACTACTACATGGACGTCTGGGGCAAAGGGACCACGGTCACCGTCTCCTCAG"}}, "cyst-positions": {"IGHV3-7*05": 285, "IGHV3-66*02": 282}, "tryp-positions": {"IGHJ4*02": 14, "IGHJ2*01": 19, "IGHJ3*02": 16, "IGHJ6*02": 29, "IGHJ5*02": 17, "IGHJ1*01": 18, "IGHJ6*03": 29}}, "partitions": [{"logprob": 0.0, "n_clusters": 10, "n_procs": 1, "partition": [["16df39683f"], ["6e208eca11"], ["7f6d2ba874"], ["8024ed1a22"], ["18f4019708"], ["ee25049b92"], ["efdea248af"], ["5fb484a8a6"], ["9c3cedb840"], ["648902c3e5"]]}], "events": [{"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["16df39683f"], "invalid": false, "v_gene": "IGHV3-7*05", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ6*02", "cdr3_length": 63, "mut_freqs": [0.0158311345646438], "n_mutations": [6], "input_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTAAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGGGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATATTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGATCCGAAGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"], "naive_seq": 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["GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGCGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAAGGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATATTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAAGACACGGCCGTGTATTACTGTGCTAGAGACTGCGAAGCAGCTGGTACCTGTTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGACAAGGGACCACGGTCACCGTCTCCTCAG"], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTGTTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 0, "j_5p_del": 17, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTGCGA", "dj_insertion": "CTGTTCTAAGTTGCGTGAG", 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"GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 9, "d_3p_del": 0, "j_5p_del": 17, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTGCGA", "dj_insertion": "CTATTCTAAGTTGCGTGAG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "codon_positions": {"v": 285, "j": 345}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 18, "min": 16, "max": 38}, "all_matches": [{"v": {"IGHV3-7*05": {"score": 1440, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-13*01": {"score": 60, "glbounds": [9, 21], 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