partis-bcr 1.0.12.post1.dev3__cp312-cp312-macosx_10_13_universal2.whl → 1.0.12.post1.dev4__cp312-cp312-macosx_10_13_universal2.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 (63) hide show
  1. packages/bpp/lib/libbpp-core.a +0 -0
  2. packages/bpp/lib/libbpp-core.so +0 -0
  3. packages/bpp/lib/libbpp-core.so.2 +0 -0
  4. packages/bpp/lib/libbpp-core.so.2.0.3 +0 -0
  5. packages/bpp/lib/libbpp-phyl.a +0 -0
  6. packages/bpp/lib/libbpp-phyl.so +0 -0
  7. packages/bpp/lib/libbpp-phyl.so.9 +0 -0
  8. packages/bpp/lib/libbpp-phyl.so.9.1.3 +0 -0
  9. packages/bpp/lib/libbpp-seq.a +0 -0
  10. packages/bpp/lib/libbpp-seq.so +0 -0
  11. packages/bpp/lib/libbpp-seq.so.9 +0 -0
  12. packages/bpp/lib/libbpp-seq.so.9.1.3 +0 -0
  13. {partis_bcr-1.0.12.post1.dev3.dist-info → partis_bcr-1.0.12.post1.dev4.dist-info}/METADATA +1 -1
  14. {partis_bcr-1.0.12.post1.dev3.dist-info → partis_bcr-1.0.12.post1.dev4.dist-info}/RECORD +63 -51
  15. test/new-results/partition-new-simu/fasttree/iclust-0/log +3 -3
  16. test/new-results/partition-new-simu/fasttree/iclust-1/log +3 -3
  17. test/new-results/partition-new-simu/fasttree/iclust-2/log +4 -4
  18. test/new-results/run-times.csv +8 -8
  19. test/new-results/test.log +45 -45
  20. test/paired/new-results/partition-new-simu/fasttree/iclust-0/log +5 -5
  21. test/paired/new-results/partition-new-simu/fasttree/iclust-1/log +6 -6
  22. test/paired/new-results/partition-new-simu/fasttree/iclust-2/log +4 -4
  23. test/paired/new-results/partition-new-simu/igh+igk/partition-igh/fasttree/iclust-0/log +5 -5
  24. test/paired/new-results/partition-new-simu/igh+igk/partition-igh/fasttree/iclust-1/log +4 -4
  25. test/paired/new-results/partition-new-simu/igh+igk/partition-igk/fasttree/iclust-0/log +3 -3
  26. test/paired/new-results/partition-new-simu/igh+igl/partition-igh/fasttree/iclust-0/log +5 -5
  27. test/paired/new-results/partition-new-simu/igh+igl/partition-igl/fasttree/iclust-0/log +1 -1
  28. test/paired/new-results/partition-new-simu-annotation-performance/plots/flcount-matrix.svg +107 -107
  29. test/paired/new-results/partition-new-simu-annotation-performance/plots/func-non-func-per-drop-log.svg +83 -83
  30. test/paired/new-results/partition-new-simu-annotation-performance/plots/func-non-func-per-drop.svg +61 -61
  31. test/paired/new-results/partition-new-simu-annotation-performance/plots/paired-seqs-per-seq-after.svg +18 -18
  32. test/paired/new-results/partition-new-simu-annotation-performance/plots/paired-seqs-per-seq-before.svg +24 -24
  33. test/paired/new-results/partition-new-simu-annotation-performance/plots/pseq-matrix.svg +35 -35
  34. test/paired/new-results/partition-new-simu-annotation-performance/plots/seqs-per-droplet.svg +22 -22
  35. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-correct-family.svg +45 -45
  36. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-correct.svg +45 -45
  37. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-mispaired.svg +45 -45
  38. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-multiple.svg +15 -15
  39. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-near-family.svg +15 -15
  40. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-total.svg +47 -47
  41. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance-unpaired.svg +48 -48
  42. test/paired/new-results/partition-new-simu-annotation-performance/plots/true-pair-clean-performance.svg +27 -27
  43. test/paired/new-results/run-times.csv +6 -6
  44. test/paired/new-results/subset-partition-new-simu/isub-0/partition.log +68 -68
  45. test/paired/new-results/subset-partition-new-simu/isub-1/partition.log +71 -70
  46. test/paired/new-results/subset-partition-new-simu/merged-partition.log +37 -37
  47. test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml +1 -1
  48. test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igk/sw-cache.yaml +1 -1
  49. test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igl/sw-cache.yaml +1 -1
  50. test/paired/new-results/test.log +146 -146
  51. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/cf-alleles.py +0 -0
  52. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/cf-germlines.py +0 -0
  53. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/compare-plotdirs.py +0 -0
  54. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/extract-pairing-info.py +0 -0
  55. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/gctree-run.py +0 -0
  56. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/get-naive-probabilities.py +0 -0
  57. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/parse-output.py +0 -0
  58. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/partis-test.py +0 -0
  59. {partis_bcr-1.0.12.post1.dev3.data → partis_bcr-1.0.12.post1.dev4.data}/scripts/split-loci.py +0 -0
  60. {partis_bcr-1.0.12.post1.dev3.dist-info → partis_bcr-1.0.12.post1.dev4.dist-info}/WHEEL +0 -0
  61. {partis_bcr-1.0.12.post1.dev3.dist-info → partis_bcr-1.0.12.post1.dev4.dist-info}/entry_points.txt +0 -0
  62. {partis_bcr-1.0.12.post1.dev3.dist-info → partis_bcr-1.0.12.post1.dev4.dist-info}/licenses/COPYING +0 -0
  63. {partis_bcr-1.0.12.post1.dev3.dist-info → partis_bcr-1.0.12.post1.dev4.dist-info}/top_level.txt +0 -0
test/paired/new-results/subset-partition-new-simu/merged-subsets/parameters/igh/sw-cache.yaml CHANGED
@@ -1 +1 @@
1
- {"version-info": {"partis-yaml": 0.1, "partis-git": {"commit": "bb628d0aff62c4fc5e7dee0303492f755b76b050", "tag": "v1.0.12", "n_ahead_of_tag": "3"}}, "germline-info": {"locus": "igh", "functionalities": {}, "seqs": {"v": {"IGHV1-2*02": "CAGGTGCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGATACACCTTCACCGGCTACTATATGCACTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAACCCTAACAGTGGTGGCACAAACTATGCACAGAAGTTTCAGGGCAGGGTCACCATGACCAGGGACACGTCCATCAGCACAGCCTACATGGAGCTGAGCAGGCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV1-69*04": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGAGA", "IGHV2-70*01": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATAC", "IGHV3-33*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV4-39*01": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACA"}, "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": {"IGHV1-69*04": 285, "IGHV1-2*02": 285, "IGHV3-33*01": 285, "IGHV2-70*01": 288, "IGHV3-7*01": 285, "IGHV4-39*01": 288}, "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": 56, "n_procs": 1, "partition": [["bb82ebe094-igh"], ["253ca59333-igh"], ["b739ce37b7-igh"], ["7c67587674-igh"], ["e6fa048856-igh"], ["aa25e6c0ce-igh"], ["4f03967793-igh"], ["28f6e090f2-igh"], ["7588f09c07-igh"], ["cb8a759f1a-igh"], ["a4b090d0be-igh"], ["f3509e0ef3-igh"], ["a3baa83300-igh"], ["be186138e0-igh"], ["6cf028b770-igh"], ["8b9ef6b10e-igh"], ["c0fcfe005f-igh"], ["a2238f4e9a-igh"], ["8d79fca804-igh"], ["584ba32878-igh"], ["3a07b6f0a9-igh"], ["c2cc9da0c3-igh"], ["6577576bb8-igh"], ["cdae60eacc-igh"], ["0eb272ee70-igh"], ["b9148494e2-igh"], ["7334912e1e-igh"], ["789d880ef2-igh"], ["09f5010bd3-igh"], ["cfe3b29587-igh"], ["35fc655801-igh"], ["7d4166ae48-igh"], ["9ed10b6475-igh"], ["b02ee7754a-igh"], ["3542bd38d8-igh"], ["665985d2d1-igh"], ["ddcf0ca433-igh"], ["bc11af4843-igh"], ["eee6809ad6-igh"], ["14195e4958-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh"], ["57537e5f22-igh"], ["7ba384a461-igh"], ["d1ee7f9ce6-igh"], ["b1e56e40a1-igh"], ["453132f3ab-igh"], ["b997fa9304-igh"], ["21cea6e4d0-igh"], ["f094dfd68a-igh"], ["3c5f4c778a-igh"], ["28ce45b82a-igh"], ["52387a89c7-igh"], ["eee2c7797d-igh"], ["4d37fe487e-igh"], ["276733008f-igh"]]}], "events": [{"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["bb82ebe094-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.06983240223463687], "n_mutations": [25], "input_seqs": ["CAGGTCACCTTGAGGGAGTTTGGTCCTGCGCTGGTGAAATCCAGACAGATCCTCACCGTGACCTGGACCTTCTCTGGGTTCTCACTCGGCACTAATGGAATGTGTGTGAGCTGGAACCGTCAGCCCCCAGGAAAGGCCATGGAGTGGCTTGGACGCATTGATTGGGATGAGCATAAATACTACAGCACATCGCTGAAAAGCAGGCTCACCATCTCCAAGGACACCTCCAAACACCGGGTGGTCCTTACAATGACCAACATGAACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTATTGATTTTAGAACTTGATTACTGGGGCTAGGGAACCCTGTTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTATTGATTTTAGAACTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 18, "j_5p_del": 6, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TATT", "dj_insertion": "AGAAC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "paired-uids": [["bb82ebe094-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}, "k_v": {"best": 301, "min": 301, "max": 302}, "k_d": {"best": 10, "min": 8, "max": 16}, "all_matches": [{"v": {"IGHV2-70*01": {"score": 1285, "glbounds": [0, 301], "qrbounds": [0, 301]}}, "d": {"IGHD3-3*01": {"score": 30, "glbounds": [7, 13], "qrbounds": [305, 311]}, "IGHD3-16*03": {"score": 25, "glbounds": [6, 11], "qrbounds": [304, 309]}, "IGHD3-16*02": {"score": 25, "glbounds": [6, 11], "qrbounds": [304, 309]}, "IGHD3-10*03": {"score": 25, "glbounds": [24, 31], "qrbounds": [309, 316]}, "IGHD3-10*01": {"score": 25, "glbounds": [24, 31], "qrbounds": [309, 316]}}, "j": {"IGHJ4*02": {"score": 180, "glbounds": [6, 48], "qrbounds": [316, 358]}, "IGHJ5*02": {"score": 155, "glbounds": [16, 51], "qrbounds": [323, 358]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["253ca59333-igh"], "invalid": false, "v_gene": "IGHV4-39*01", "d_gene": "IGHD2-2*02", "j_gene": "IGHJ4*02", "cdr3_length": 57, "mut_freqs": [0.04521276595744681], "n_mutations": [17], "input_seqs": ["CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTCTGTTGGCTCCATCAGCAGAAGTAGTTACTACTGCGGCCCGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGATTCGGAGTATCTATTATAGTGGGAGCACCTACTACATCCAGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGCGTATTACTGTGCGAGCCAACCATGCATATCAGTACCTCCTACTAAACTCTCGCAAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACAACCATGCATATCAGTACCAGCTGCTATACTCTCGCAAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 13, "d_3p_del": 1, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "ACCATGCATATC", "dj_insertion": "TCTCGCAA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["253ca59333-igl", "b739ce37b7-igh", "b739ce37b7-igl"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 342}, "k_v": {"best": 299, "min": 296, "max": 300}, "k_d": {"best": 29, "min": 18, "max": 41}, "all_matches": [{"v": {"IGHV4-39*01": {"score": 1365, "glbounds": [0, 299], "qrbounds": [0, 299]}}, "d": {"IGHD2-2*02": {"score": 45, "glbounds": [13, 30], "qrbounds": [311, 328]}, "IGHD2-15*01": {"score": 40, "glbounds": [17, 29], "qrbounds": [312, 324]}, "IGHD2-2*01": {"score": 40, "glbounds": [13, 27], "qrbounds": [311, 325]}, "IGHD6-19*01": {"score": 35, "glbounds": [4, 21], "qrbounds": [306, 323]}, "IGHD6-13*01": {"score": 35, "glbounds": [4, 21], "qrbounds": [306, 323]}}, "j": {"IGHJ4*02": {"score": 200, "glbounds": [8, 48], "qrbounds": [336, 376]}, "IGHJ5*02": {"score": 180, "glbounds": [11, 51], "qrbounds": [336, 376]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["b739ce37b7-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD2-21*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.07692307692307693], "n_mutations": [28], "input_seqs": ["CAGGTCCAGCTGATGCAGTCTTGGGCTGAGCTGAAGAAGCCTGTGTCCTCGCTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTAAGATATCAACTGTGTGCGACAGGCCCCTGGACAGGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACATCGCACAGAAGTTCCACGGCAGAGTCACGATTCCCGTGGAAATATACACGATGACAGCCTACATGGAGCTGAGCAGCATGAGATCCGGGGACACGGCCGTGTATTACTGTGGGAGATGACGGGAGGGAGATGGTGTTGATTACTTTGACTATTGGGGCCAGGGAACCCTGGTCACCGTCTTCTCAC"], "has_shm_indels": [false], "naive_seq": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGATGACGGGAGGGAGATGGTGGTGATTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 2, "d_5p_del": 9, "d_3p_del": 9, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TGACGGGAGGGAGA", "dj_insertion": "", "fv_insertion": 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["CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACT..CTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGCTGGAGGCGATTTTTGGAGTGGTATTTTCGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["CAGGTGTAGCTGATGGTGTCTGGGGGAGGCGTGGTCCAGCCTAGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGCCATGCACTGGGTCCGCCAGGCACCCGCCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTATTATATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACCCGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGAATTACTGTGCGAGAGAGGCTGGAGGCGATTTGTGGAATGGTATTTTCGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["6577576bb8-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ5*02", "cdr3_length": 66, "mut_freqs": [0.03664921465968586], "n_mutations": [14], 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{"IGHD2-8*02": {"score": 45, "glbounds": [11, 24], "qrbounds": [304, 317]}, "IGHD2-8*01": {"score": 45, "glbounds": [11, 24], "qrbounds": [304, 317]}, "IGHD2-15*01": {"score": 40, "glbounds": [9, 17], "qrbounds": [305, 313]}, "IGHD2-21*01": {"score": 40, "glbounds": [11, 21], "qrbounds": [307, 317]}, "IGHD3-16*02": {"score": 35, "glbounds": [13, 22], "qrbounds": [312, 321]}}, "j": {"IGHJ4*02": {"score": 185, "glbounds": [7, 48], "qrbounds": [323, 364]}, "IGHJ5*02": {"score": 165, "glbounds": [16, 51], "qrbounds": [329, 364]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["4d37fe487e-igh"], "invalid": false, "v_gene": "IGHV4-39*01", "d_gene": "IGHD2-2*01", "j_gene": "IGHJ4*02", "cdr3_length": 57, "mut_freqs": [0.047872340425531915], "n_mutations": [18], "input_seqs": ["CAGCTGCAGCTGCAGGAGTCGAACCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTATGGTGGCTCCATCACCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGCTTGGGAGTATCTCTTATAGTGGGAGCACATACTACAACCAGTCACTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCATGAACCAGTTCTCCCTGAAGCTGAGCTCTGTCACCGCCGCAGACACGGCTGCGTCTTACTGTGCGAGCCTGCCTAGAAGAGAAGTACCTCTTTATAAGATAGCTCAAGACTACTGGGACCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCCTGCCTAGAAGAGTAGTACCTCTTTATAAGATAGCTCAAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 3, "d_5p_del": 10, "d_3p_del": 12, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCTGCCTAGAAG", 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1
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"CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATAC", "IGHV3-33*01": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV3-7*01": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGA", "IGHV4-39*01": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGACA"}, "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", 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["0eb272ee70-igh"], ["b9148494e2-igh"], ["7334912e1e-igh"], ["789d880ef2-igh"], ["09f5010bd3-igh"], ["cfe3b29587-igh"], ["35fc655801-igh"], ["7d4166ae48-igh"], ["9ed10b6475-igh"], ["b02ee7754a-igh"], ["3542bd38d8-igh"], ["665985d2d1-igh"], ["ddcf0ca433-igh"], ["bc11af4843-igh"], ["eee6809ad6-igh"], ["14195e4958-igh"], ["db63559ea9-igh"], ["e11acbe3ab-igh"], ["57537e5f22-igh"], ["7ba384a461-igh"], ["d1ee7f9ce6-igh"], ["b1e56e40a1-igh"], ["453132f3ab-igh"], ["b997fa9304-igh"], ["21cea6e4d0-igh"], ["f094dfd68a-igh"], ["3c5f4c778a-igh"], ["28ce45b82a-igh"], ["52387a89c7-igh"], ["eee2c7797d-igh"], ["4d37fe487e-igh"], ["276733008f-igh"]]}], "events": [{"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["bb82ebe094-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.06983240223463687], "n_mutations": [25], "input_seqs": 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"padrights": [""]}, {"qr_gap_seqs": ["GAGGTGCAACTGGTGGCGTCTGGGGGAGGCTTGGACCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGCATTCACCTTTAGTTGCTATCGAATTCGCTGGGTCCGCCAGACTCAAGGGAAGGGGCT........TGGCTAACATAAAGCAAGATGCAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGTAAATGAACAGCCTGAGAGCCGAGGGCACGGCTGTGTCTTACTGTGCGCGAGTACATTGCCCGAGTGCACGCGTCCGCGGTGACTACTGGGGCCTGCGAACCCTGGTCACCGTCTCCTCAG"], "gl_gap_seqs": ["GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGTACATTGCCCGAGTGCACGCGTCCGCGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["GAGGTGCAACTGGTGGCGTCTGGGGGAGGCTTGGACCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGCATTCACCTTTAGTTGCTATCGAATTCGCTGGGTCCGCCAGACTCAAGGGAAGGGGCTGGAGTGGGTGGCTAACATAAAGCAAGATGCAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGTAAATGAACAGCCTGAGAGCCGAGGGCACGGCTGTGTCTTACTGTGCGCGAGTACATTGCCCGAGTGCACGCGTCCGCGGTGACTACTGGGGCCTGCGAACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["cb8a759f1a-igh"], "invalid": false, "v_gene": "IGHV3-7*01", "d_gene": "IGHD3-16*03", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.0521978021978022], "n_mutations": [19], "input_seqs": ["GAGGTGCAACTGGTGGCGTCTGGGGGAGGCTTGGACCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGCATTCACCTTTAGTTGCTATCGAATTCGCTGGGTCCGCCAGACTCAAGGGAAGGGGCTTGGCTAACATAAAGCAAGATGCAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGTAAATGAACAGCCTGAGAGCCGAGGGCACGGCTGTGTCTTACTGTGCGCGAGTACATTGCCCGAGTGCACGCGTCCGCGGTGACTACTGGGGCCTGCGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [true], "naive_seq": "GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGTACATTGCCCGAGTGCACGCGTCCGCGGTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 1, "d_5p_del": 10, "d_3p_del": 21, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GCCCGAGTGCACGCGTCCGCGG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [false], "stops": [true], "paired-uids": [["7588f09c07-igh", "7588f09c07-igl"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 330}, "k_v": {"best": 295, "min": 291, "max": 296}, "k_d": {"best": 6, "min": 4, "max": 33}, "all_matches": [{"v": {"IGHV3-7*01": {"score": 1305, "glbounds": [0, 295], "qrbounds": [0, 295]}}, "d": {"IGHD3-16*03": {"score": 30, "glbounds": [10, 16], "qrbounds": [295, 301]}, "IGHD3-3*01": {"score": 25, "glbounds": [15, 20], "qrbounds": [305, 310]}, "IGHD2-21*01": {"score": 25, "glbounds": [17, 22], "qrbounds": [298, 303]}, "IGHD6-6*01": {"score": 25, "glbounds": [13, 18], "qrbounds": [314, 319]}, "IGHD1-1*01": {"score": 20, "glbounds": [2, 6], "qrbounds": [295, 299]}}, "j": {"IGHJ4*02": {"score": 185, "glbounds": [7, 48], "qrbounds": [323, 364]}, "IGHJ5*02": {"score": 160, "glbounds": [11, 51], "qrbounds": [324, 364]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["a4b090d0be-igh"], "invalid": false, "v_gene": "IGHV2-70*01", "d_gene": "IGHD2-8*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.061452513966480445], "n_mutations": [22], "input_seqs": ["CCGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCTCTCAGCACTAGTGGCATGTGTGTGAGCTGGATCCGTCAGCCCGCAGGGCAGGCCCAGGAGGGGCTTGGACTCATTGATTGGGATGATCATAAATACTACAGCACATCTCTGAAGAACAGACTTACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGATACAGTAACGTATTACTGTGGACGGATACCCTCAATCGTGTACTTGGATTTCTGGGCCCAGGGAACCCTGGTAACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACCCTCAATGGTGTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 13, "d_3p_del": 11, "j_5p_del": 2, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCTC", "dj_insertion": "", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["8807c8ff04-igl", "a4b090d0be-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}, "k_v": {"best": 301, "min": 301, "max": 302}, "k_d": {"best": 11, "min": 7, "max": 12}, "all_matches": [{"v": {"IGHV2-70*01": {"score": 1345, "glbounds": [0, 301], "qrbounds": [0, 301]}}, "d": {"IGHD2-8*01": {"score": 25, "glbounds": [13, 20], "qrbounds": [305, 312]}, "IGHD3-16*02": {"score": 25, "glbounds": [26, 31], "qrbounds": [306, 311]}, "IGHD3-16*03": {"score": 25, "glbounds": [26, 31], "qrbounds": [306, 311]}, "IGHD5-24*01": {"score": 20, "glbounds": [13, 17], "qrbounds": [304, 308]}, "IGHD6-6*01": {"score": 20, "glbounds": [12, 16], "qrbounds": [307, 311]}}, "j": {"IGHJ4*02": {"score": 180, "glbounds": [2, 48], "qrbounds": [312, 358]}, "IGHJ2*01": {"score": 155, "glbounds": [6, 53], "qrbounds": [311, 358]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["f3509e0ef3-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD1-14*01", "j_gene": "IGHJ6*02", "cdr3_length": 54, "mut_freqs": [0.021621621621621623], "n_mutations": [8], "input_seqs": ["CTAGTTCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGAATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATCTGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGGGGACACGGCTGTGTATTACTGTGCGAGAGAGCCGACACAGGAACCACGAGTTTGCTACGATATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGCCGACACCGGAACCACGAGTTTGCTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 6, "d_3p_del": 0, "j_5p_del": 13, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GCCGAC", "dj_insertion": "GAGTTTG", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["f3509e0ef3-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 336}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 17, "min": 17, "max": 25}, "all_matches": [{"v": {"IGHV3-33*01": {"score": 1425, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD1-14*01": {"score": 45, "glbounds": [6, 17], "qrbounds": [302, 313]}, "IGHD1-1*01": {"score": 35, "glbounds": [6, 17], "qrbounds": [302, 313]}, "IGHD1-20*01": {"score": 35, "glbounds": [6, 17], "qrbounds": [302, 313]}, "IGHD4-4*01": {"score": 35, "glbounds": [5, 16], "qrbounds": [302, 313]}, "IGHD1-7*01": {"score": 35, "glbounds": [6, 17], "qrbounds": [302, 313]}}, "j": {"IGHJ6*02": {"score": 240, "glbounds": [13, 63], "qrbounds": [320, 370]}, "IGHJ6*03": {"score": 220, "glbounds": [13, 63], "qrbounds": [320, 370]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["a3baa83300-igh"], "invalid": false, "v_gene": "IGHV4-39*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 57, "mut_freqs": [0.05851063829787234], "n_mutations": [22], "input_seqs": ["CAGCTGCAGCAGCAGGAGTCGGGCCCAGGACTGGTGATGCCTTCGGAGACCTTATCCCTCACCTGCACTGGCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACAGGGGCTCGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGATTGGGAGTATCTATTAAAGTGGGAGCACCTACTACAACCAGTCCCTCAAGAGTCGAGTCTCCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGGTCTGTGACCGCGGCAGACACGGCTGCGTATTACTGTGCGAGCTAGCAATGTAAAACAGTACCTCCTACGTCCATCGGTCGAGACTACTGGGGCCAGGGAACCCTGGTTCCCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCTAGCAATGTATAGCAGTGGCTGGTACGTCCATCGGTCGAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 3, "d_5p_del": 2, "d_3p_del": 0, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CTAGCAAT", "dj_insertion": "GTCCATCGGTCGA", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "paired-uids": [["a3baa83300-igl"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 342}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 27, "min": 18, "max": 41}, "all_matches": [{"v": {"IGHV4-39*01": {"score": 1340, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": {"IGHD6-19*01": {"score": 35, "glbounds": [2, 21], "qrbounds": [304, 323]}, "IGHD6-13*01": {"score": 35, "glbounds": [2, 21], "qrbounds": [304, 323]}, "IGHD2-15*01": {"score": 35, "glbounds": [17, 28], "qrbounds": [312, 323]}, "IGHD4-4*01": {"score": 35, "glbounds": [5, 14], "qrbounds": [309, 318]}, "IGHD6-6*01": {"score": 30, "glbounds": [2, 18], "qrbounds": [304, 320]}}, "j": {"IGHJ4*02": {"score": 180, "glbounds": [8, 48], "qrbounds": [336, 376]}, "IGHJ5*02": {"score": 160, "glbounds": [11, 51], "qrbounds": [336, 376]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["be186138e0-igh"], "invalid": false, "v_gene": "IGHV1-69*04", "d_gene": "IGHD1-26*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.0], "n_mutations": [0], "input_seqs": ["CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCGTATAGTGGGAGCTACTACTTACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTCCAGCTGGTGCAGTCTGGGGCTGAGGTGAAGAAGCCTGGGTCCTCGGTGAAGGTCTCCTGCAAGGCTTCTGGAGGCACCTTCAGCAGCTATGCTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGAAGGATCATCCCTATCCTTGGTATAGCAAACTACGCACAGAAGTTCCAGGGCAGAGTCACGATTACCGCGGACAAATCCACGAGCACAGCCTACATGGAGCTGAGCAGCCTGAGATCTGAGGACACGGCCGTGTATTACTGTGCGAGGCGTATAGTGGGAGCTACTACTTACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "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": "GC", "dj_insertion": "TT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["be186138e0-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 330}, "k_v": {"best": 293, "min": 293, "max": 294}, "k_d": {"best": 21, "min": 21, "max": 24}, "all_matches": [{"v": {"IGHV1-69*04": {"score": 1465, "glbounds": [0, 293], "qrbounds": [0, 293]}}, "d": {"IGHD1-26*01": {"score": 95, "glbounds": [1, 20], "qrbounds": [295, 314]}, "IGHD2-15*01": {"score": 55, "glbounds": [14, 29], "qrbounds": [300, 315]}, "IGHD6-13*01": {"score": 45, "glbounds": [2, 21], "qrbounds": [295, 314]}}, "j": {"IGHJ4*02": {"score": 240, "glbounds": [0, 48], "qrbounds": [316, 364]}, "IGHJ5*02": {"score": 190, "glbounds": [3, 51], "qrbounds": [316, 364]}}}], "padlefts": [""], "padrights": [""]}, {"qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["6cf028b770-igh"], "invalid": false, "v_gene": "IGHV3-33*01", "d_gene": "IGHD3-3*01", "j_gene": "IGHJ5*02", "cdr3_length": 66, "mut_freqs": [0.0549738219895288], "n_mutations": [21], "input_seqs": ["CAGGCGCAGCGGATGGAGTCTGGGGGAGGCGTGGTCCAGCCTAGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCAGGATTCACCTTCAGTAGCTATGGCATGCACCGGGTCCGCCAGGCACCCGCCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATCTTGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACCCGCTGTATCTGCAAATGACAAGCCTGAGAGCCGAGGACACGGATGTGAATTACTGTGCGAGAGATACTGGCGGCGATTTTTCGAATGGCCTTTATGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGATACTGGCGGCGATTTTTGGAGTGGTTATTATGGGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 6, "d_3p_del": 3, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TACTGGCGG", 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"CAGGTCACCTTGAGGGAGTCTGGTCCTGCGCTGGTGAAACCCACACAGACCCTCACACTGACCTGCACCTTCTCTGGGTTCTCACTCAGCACTAGTGGAATGTGTGTGAGCTGGATCCGTCAGCCCCCAGGGAAGGCCCTGGAGTGGCTTGCACTCATTGATTGGGATGATGATAAATACTACAGCACATCTCTGAAGACCAGGCTCACCATCTCCAAGGACACCTCCAAAAACCAGGTGGTCCTTACAATGACCAACATGGACCCTGTGGACACAGCCACGTATTACTGTGCACGGATACTCGCGAATTTGGATTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 11, "d_3p_del": 14, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TCGCGAA", "dj_insertion": "T", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "paired-uids": [["3542bd38d8-igk"]], "loci": ["igh"], "codon_positions": {"v": 288, "j": 324}, "k_v": {"best": 301, "min": 301, "max": 302}, "k_d": {"best": 13, "min": 12, "max": 21}, "all_matches": [{"v": {"IGHV2-70*01": {"score": 1315, "glbounds": [0, 301], "qrbounds": [0, 301]}}, "d": {"IGHD3-3*01": {"score": 30, 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["CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCACCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCATCTGGATTCACCGTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGAATTACTGTGCGAGAGAGGCTGGGTTAGATTTTGGGTTTGGTTAGTGTGCGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGGTGCAGCTGGTGGAGTCTGGGGGAGGCGTGGTCCAGCCTGGGAGGTCCCTGAGACTCTCCTGTGCAGCGTCTGGATTCACCTTCAGTAGCTATGGCATGCACTGGGTCCGCCAGGCTCCAGGCAAGGGGCTGGAGTGGGTGGCAGTTATATGGTATGATGGAAGTAATAAATACTATGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGGCTGGGTTAGATTTTTGGAGTGGTTAGTGTGCGAACAACTGGTTCGACCCCTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 7, "d_3p_del": 7, "j_5p_del": 0, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GGCTGGGTTA", 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"GAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCTGTGTATTACTGTGCGAGAGAGCAACCGGCTGGTGGTGTATGGCGGGCTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 0, "d_5p_del": 11, "d_3p_del": 7, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "GCAACCGG", "dj_insertion": "GCGGGC", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [true], "paired-uids": [["52387a89c7-igh", "52387a89c7-igk"]], "loci": ["igh"], "codon_positions": {"v": 285, "j": 330}, "k_v": {"best": 296, "min": 296, "max": 297}, "k_d": {"best": 21, "min": 17, "max": 32}, "all_matches": [{"v": {"IGHV3-7*01": {"score": 1375, "glbounds": [0, 296], "qrbounds": [0, 296]}}, "d": 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["CAGCTGCAGCTGCAGGAGTCGAACCCAGGACTGGTGATGCCTTCGGAGACCTTGTCCCTCACCTGCACTGTCTATGGTGGCTCCATCACCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGTAAGGGGCTGGAGTGGCTTGGGAGTATCTCTTATAGTGGGAGCACATACTACAACCAGTCACTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCATGAACCAGTTCTCCCTGAAGCTGAGCTCTGTCACCGCCGCAGACACGGCTGCGTCTTACTGTGCGAGCCTGCCTAGAAGAGAAGTACCTCTTTATAAGATAGCTCAAGACTACTGGGACCAGGGAACCCTGGTCACCGTCTCCTCAG"], "has_shm_indels": [false], "naive_seq": "CAGCTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGCAGTAGTAGTTACTACTGGGGCTGGATCCGCCAGCCCCCAGGGAAGGGGCTGGAGTGGATTGGGAGTATCTATTATAGTGGGAGCACCTACTACAACCCGTCCCTCAAGAGTCGAGTCACCATATCCGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCTGTGTATTACTGTGCGAGCCTGCCTAGAAGAGTAGTACCTCTTTATAAGATAGCTCAAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_3p_del": 3, "d_5p_del": 10, "d_3p_del": 12, "j_5p_del": 8, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "CCTGCCTAGAAG", 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