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

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/v_allele_fraction_correct_vs_per_gene_support.csv

@@ -0,0 +1,28 @@
+bin_low_edge,contents,binlabel,error
+-0.04,0.0,,0.0
+0.0,0.0,,0.0
+0.04,0.0,,0.0
+0.08,0.0,,0.0
+0.12,0.0,,0.0
+0.16,0.0,,0.0
+0.2,0.0,,0.0
+0.24,0.0,,0.0
+0.28,0.0,,0.0
+0.32,0.0,,0.0
+0.36,0.0,,0.0
+0.4,0.0,,0.0
+0.44,0.0,,0.0
+0.48,0.0,,0.0
+0.52,0.0,,0.0
+0.56,0.0,,0.0
+0.6,0.0,,0.0
+0.64,0.0,,0.0
+0.68,0.0,,0.0
+0.72,0.0,,0.0
+0.76,0.0,,0.0
+0.8,0.0,,0.0
+0.84,0.0,,0.0
+0.88,0.0,,0.0
+0.92,0.0,,0.0
+0.96,0.0,,0.0
+1.0,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/v_fraction_correct_vs_mute_freq.csv

@@ -0,0 +1,28 @@
+bin_low_edge,contents,binlabel,error
+-0.016,0.0,,0.0
+0.0,1.0,,0.03717459069360163
+0.016,1.0,,0.12831445712826428
+0.032,0.0,,0.0
+0.048,0.0,,0.0
+0.064,0.0,,0.0
+0.08,0.0,,0.0
+0.096,0.0,,0.0
+0.112,0.0,,0.0
+0.128,0.0,,0.0
+0.14400000000000002,0.0,,0.0
+0.16,0.0,,0.0
+0.176,0.0,,0.0
+0.192,0.0,,0.0
+0.20800000000000002,0.0,,0.0
+0.224,0.0,,0.0
+0.24,0.0,,0.0
+0.256,0.0,,0.0
+0.272,0.0,,0.0
+0.28800000000000003,0.0,,0.0
+0.304,0.0,,0.0
+0.32,0.0,,0.0
+0.336,0.0,,0.0
+0.352,0.0,,0.0
+0.368,0.0,,0.0
+0.384,0.0,,0.0
+0.4,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/gene-call/v_gene.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,1.0,right,0.030056064897528434
+0.5,0.0,wrong,0.066735136327
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/cdr3_hamming_to_true_naive.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,34.0,,5.830951894845301
+0.5,1.0,,1.0
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/cdr3_muted_bases.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,34.0,,5.830951894845301
+0.5,1.0,,1.0
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/d_hamming_to_true_naive.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/d_muted_bases.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/hamming_to_true_naive.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,34.0,,5.830951894845301
+0.5,1.0,,1.0
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/j_hamming_to_true_naive.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/j_muted_bases.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,34.0,,5.830951894845301
+0.5,1.0,,1.0
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/mute_freqs.csv

@@ -0,0 +1,28 @@
+bin_low_edge,contents,binlabel,error
+-0.0432,0.0,,0.0
+-0.04,0.0,,0.0
+-0.0368,0.0,,0.0
+-0.0336,0.0,,0.0
+-0.0304,0.0,,0.0
+-0.027200000000000002,0.0,,0.0
+-0.024,0.0,,0.0
+-0.0208,0.0,,0.0
+-0.0176,0.0,,0.0
+-0.0144,0.0,,0.0
+-0.011199999999999998,0.0,,0.0
+-0.008,0.0,,0.0
+-0.004799999999999999,0.0,,0.0
+-0.0015999999999999973,34.0,,5.830951894845301
+0.0016000000000000042,1.0,,1.0
+0.004799999999999999,0.0,,0.0
+0.008,0.0,,0.0
+0.011200000000000002,0.0,,0.0
+0.014400000000000003,0.0,,0.0
+0.017600000000000005,0.0,,0.0
+0.0208,0.0,,0.0
+0.024,0.0,,0.0
+0.02720000000000001,0.0,,0.0
+0.030400000000000003,0.0,,0.0
+0.0336,0.0,,0.0
+0.036800000000000006,0.0,,0.0
+0.04,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/muted_bases.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,34.0,,5.830951894845301
+0.5,1.0,,1.0
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/v_hamming_to_true_naive.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/hmm/mutation/v_muted_bases.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/d_3p_del.csv

@@ -0,0 +1,8 @@
+bin_low_edge,contents,binlabel,error
+-3.5,0.0,,0.0
+-2.5,7.0,,2.6457513110645907
+-1.5,2,,1.4142135623730951
+-0.5,24,,4.898979485566356
+0.5,1,,1.0
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/d_5p_del.csv

@@ -0,0 +1,6 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,33.0,,5.744562646538029
+0.5,1,,1.0
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/dj_insertion.csv

@@ -0,0 +1,7 @@
+bin_low_edge,contents,binlabel,error
+-4.5,0.0,,0.0
+-3.5,9.0,,3.0
+-2.5,1,,1.0
+-1.5,2,,1.4142135623730951
+-0.5,23.0,,4.795831523312719
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/fv_insertion.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/j_3p_del.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/j_5p_del.csv

@@ -0,0 +1,9 @@
+bin_low_edge,contents,binlabel,error
+-6.5,0.0,,0.0
+-5.5,1.0,,1.0
+-4.5,0.0,,0.0
+-3.5,1,,1.0
+-2.5,0.0,,0.0
+-1.5,7,,2.6457513110645907
+-0.5,26.0,,5.0990195135927845
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/jf_insertion.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/shm_indel_length.csv

@@ -0,0 +1,8 @@
+bin_low_edge,contents,binlabel,error
+-5.5,0.0,,0.0
+-4.5,1.0,,1.0
+-3.5,0.0,,0.0
+-2.5,0.0,,0.0
+-1.5,0.0,,0.0
+-0.5,3.0,,1.7320508075688772
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/v_3p_del.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/v_5p_del.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/boundaries/vd_insertion.csv

@@ -0,0 +1,6 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,33.0,,5.744562646538029
+0.5,1,,1.0
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/d_fraction_correct_vs_mute_freq.csv

@@ -0,0 +1,28 @@
+bin_low_edge,contents,binlabel,error
+-0.016,0.0,,0.0
+0.0,0.9642857142857143,,0.08201246007278784
+0.016,1.0,,0.12831445712826428
+0.032,0.0,,0.0
+0.048,0.0,,0.0
+0.064,0.0,,0.0
+0.08,0.0,,0.0
+0.096,0.0,,0.0
+0.112,0.0,,0.0
+0.128,0.0,,0.0
+0.14400000000000002,0.0,,0.0
+0.16,0.0,,0.0
+0.176,0.0,,0.0
+0.192,0.0,,0.0
+0.20800000000000002,0.0,,0.0
+0.224,0.0,,0.0
+0.24,0.0,,0.0
+0.256,0.0,,0.0
+0.272,0.0,,0.0
+0.28800000000000003,0.0,,0.0
+0.304,0.0,,0.0
+0.32,0.0,,0.0
+0.336,0.0,,0.0
+0.352,0.0,,0.0
+0.368,0.0,,0.0
+0.384,0.0,,0.0
+0.4,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/d_gene.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,0.9714285714285714,right,0.058548549035571384
+0.5,0.02857142857142857,wrong,0.058548549035571426
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/j_fraction_correct_vs_mute_freq.csv

@@ -0,0 +1,28 @@
+bin_low_edge,contents,binlabel,error
+-0.016,0.0,,0.0
+0.0,1.0,,0.03717459069360163
+0.016,1.0,,0.12831445712826428
+0.032,0.0,,0.0
+0.048,0.0,,0.0
+0.064,0.0,,0.0
+0.08,0.0,,0.0
+0.096,0.0,,0.0
+0.112,0.0,,0.0
+0.128,0.0,,0.0
+0.14400000000000002,0.0,,0.0
+0.16,0.0,,0.0
+0.176,0.0,,0.0
+0.192,0.0,,0.0
+0.20800000000000002,0.0,,0.0
+0.224,0.0,,0.0
+0.24,0.0,,0.0
+0.256,0.0,,0.0
+0.272,0.0,,0.0
+0.28800000000000003,0.0,,0.0
+0.304,0.0,,0.0
+0.32,0.0,,0.0
+0.336,0.0,,0.0
+0.352,0.0,,0.0
+0.368,0.0,,0.0
+0.384,0.0,,0.0
+0.4,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/j_gene.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,1.0,right,0.030056064897528434
+0.5,0.0,wrong,0.066735136327
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/v_fraction_correct_vs_mute_freq.csv

@@ -0,0 +1,28 @@
+bin_low_edge,contents,binlabel,error
+-0.016,0.0,,0.0
+0.0,1.0,,0.03717459069360163
+0.016,1.0,,0.12831445712826428
+0.032,0.0,,0.0
+0.048,0.0,,0.0
+0.064,0.0,,0.0
+0.08,0.0,,0.0
+0.096,0.0,,0.0
+0.112,0.0,,0.0
+0.128,0.0,,0.0
+0.14400000000000002,0.0,,0.0
+0.16,0.0,,0.0
+0.176,0.0,,0.0
+0.192,0.0,,0.0
+0.20800000000000002,0.0,,0.0
+0.224,0.0,,0.0
+0.24,0.0,,0.0
+0.256,0.0,,0.0
+0.272,0.0,,0.0
+0.28800000000000003,0.0,,0.0
+0.304,0.0,,0.0
+0.32,0.0,,0.0
+0.336,0.0,,0.0
+0.352,0.0,,0.0
+0.368,0.0,,0.0
+0.384,0.0,,0.0
+0.4,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/gene-call/v_gene.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,1.0,right,0.030056064897528434
+0.5,0.0,wrong,0.066735136327
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/cdr3_hamming_to_true_naive.csv

@@ -0,0 +1,6 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,31.0,,5.5677643628300215
+0.5,3,,1.7320508075688772
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/cdr3_muted_bases.csv

@@ -0,0 +1,7 @@
+bin_low_edge,contents,binlabel,error
+-2.5,0.0,,0.0
+-1.5,2.0,,1.4142135623730951
+-0.5,31,,5.5677643628300215
+0.5,1,,1.0
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/d_hamming_to_true_naive.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,34.0,,5.830951894845301
+0.5,1.0,,1.0
+1.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/d_muted_bases.csv

@@ -0,0 +1,5 @@
+bin_low_edge,contents,binlabel,error
+-2.5,0.0,,0.0
+-1.5,1.0,,1.0
+-0.5,34.0,,5.830951894845301
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/hamming_to_true_naive.csv

@@ -0,0 +1,6 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,31.0,,5.5677643628300215
+0.5,3,,1.7320508075688772
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/j_hamming_to_true_naive.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/j_muted_bases.csv

@@ -0,0 +1,6 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,33.0,,5.744562646538029
+0.5,1,,1.0
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/mute_freqs.csv

@@ -0,0 +1,28 @@
+bin_low_edge,contents,binlabel,error
+-0.0432,0.0,,0.0
+-0.04,0.0,,0.0
+-0.0368,0.0,,0.0
+-0.0336,0.0,,0.0
+-0.0304,0.0,,0.0
+-0.027200000000000002,0.0,,0.0
+-0.024,0.0,,0.0
+-0.0208,0.0,,0.0
+-0.0176,0.0,,0.0
+-0.0144,0.0,,0.0
+-0.011199999999999998,0.0,,0.0
+-0.008,0.0,,0.0
+-0.004799999999999999,2.0,,1.4142135623730951
+-0.0015999999999999973,31.0,,5.5677643628300215
+0.0016000000000000042,1.0,,1.0
+0.004799999999999999,1.0,,1.0
+0.008,0.0,,0.0
+0.011200000000000002,0.0,,0.0
+0.014400000000000003,0.0,,0.0
+0.017600000000000005,0.0,,0.0
+0.0208,0.0,,0.0
+0.024,0.0,,0.0
+0.02720000000000001,0.0,,0.0
+0.030400000000000003,0.0,,0.0
+0.0336,0.0,,0.0
+0.036800000000000006,0.0,,0.0
+0.04,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/muted_bases.csv

@@ -0,0 +1,7 @@
+bin_low_edge,contents,binlabel,error
+-2.5,0.0,,0.0
+-1.5,2.0,,1.4142135623730951
+-0.5,31,,5.5677643628300215
+0.5,1,,1.0
+1.5,1.0,,1.0
+2.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/v_hamming_to_true_naive.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu-annotation-performance/sw/mutation/v_muted_bases.csv

@@ -0,0 +1,4 @@
+bin_low_edge,contents,binlabel,error
+-1.5,0.0,,0.0
+-0.5,35.0,,5.916079783099616
+0.5,0.0,,0.0

test/new-results/multi-annotate-new-simu.yaml

@@ -0,0 +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": {"IGHD1-20*01": "GGTATAACTGGAACGAC", "IGHD3-16*02": "GTATTATGATTACGTTTGGGGGAGTTATCGTTATACC", "IGHD3-22*01": "GTATTACTATGATAGTAGTGGTTATTACTAC", "IGHD6-13*01": "GGGTATAGCAGCAGCTGGTAC", "IGHD6-19*01": "GGGTATAGCAGTGGCTGGTAC"}, "j": {"IGHJ1*01": "GCTGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "IGHJ4*02": "ACTACTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "IGHJ6*02": "ATTACTACTACTACTACGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"}}, "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, "IGHJ6*02": 29, "IGHJ1*01": 18}}, "partitions": [{"logprob": 0.0, "n_clusters": 11, "n_procs": 1, "partition": [["adc41b4237"], ["16df39683f", "6e208eca11", "7f6d2ba874"], ["e64fcd9e03"], ["d024e5cab0", "822801f8ab"], ["20a0129b57", "91796617a0", "4233d708fe", "97366cf0d8", "13de8675ec", "33aaa62e12", "31e052ee14"], ["401a542698"], ["93c01dd961", "c761732a8b"], ["bf50fa2017", "73d6c6e558", "162cb1691f", "c8a90cc3d7", "17f57acf2e", "948b83fb4d", "73431a9b10"], ["d8761c689a"], ["226be79d5f", "188e1a0235"], ["8024ed1a22", "18f4019708", "ee25049b92", "efdea248af", "5fb484a8a6", "9c3cedb840", "648902c3e5", "f47122f1f5", "308de1d739"]]}], "events": [{"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "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": ["NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTGCATGAGCTGGGTCCGCCAGGCTCCACGGGAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAAGACGCTGTATCTTCAAATGAACAGCCTGAGACCTGAGGACACGGCTGTGTATTACTGTGCGAGAGAGTTTTGTGTCGGCAGGAGTATAGCAGCAGGGCGCCCTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAGAGTTTTGTGTCGGCAGGAGTATAGCAGCAGGGCGCCCTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV3-66*02": 1.0}, "d_per_gene_support": {"IGHD6-13*01": 0.9999999913297444, "IGHD6-19*01": 8.670260428895021e-09}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "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": "NNNNNN", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "loci": ["igh"], "codon_positions": {"v": 288, "j": 342}}, {"has_shm_indels": [false, false, false], "qr_gap_seqs": ["", "", ""], "gl_gap_seqs": ["", "", ""], "indel_reversed_seqs": ["", "", ""], "unique_ids": ["16df39683f", "6e208eca11", "7f6d2ba874"], "invalid": false, "v_gene": "IGHV3-7*05", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ6*02", "cdr3_length": 63, "mut_freqs": [0.0158311345646438, 0.023746701846965697, 0.010554089709762533], "n_mutations": [6, 9, 4], "input_seqs": ["NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTAAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGGGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATATTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGATCCGAAGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGCGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAAGGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATATTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAAGACACGGCCGTGTATTACTGTGCTAGAGACTGCGAAGCAGCTGGTACCTGTTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGACAAGGGACCACGGTCACCGTCTCCTCAG", "NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTAATGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATGTTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAAGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG"], "naive_seq": "NNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGTAGCTATTGGATGAGCTGGGTCCGCCAGGCTCCAGGGAAAGGGCTGGAGTGGGTGGCCAACATAAAGCAAGATGGAAGTGAGAAATACTATGTGGACTCTGTGAAGGGCCGATTCACCATCTCCAGAGACAACGCCAAGAACTCACTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTGTATTACTGTGCGAGAGACTGCGAAGCAGCTGGTACCTATTCTAAGTTGCGTGAGGGTATGGACGTCTGGGGCCAAGGGACCACGGTCACCGTCTCCTCAG", "duplicates": [[], [], []], "leader_seqs": ["", "", ""], "c_gene_seqs": ["", "", ""], "v_per_gene_support": {"IGHV3-7*05": 1.0}, "d_per_gene_support": {"IGHD6-13*01": 0.9999999030671394, "IGHD6-19*01": 9.69328761020389e-08}, "j_per_gene_support": {"IGHJ6*02": 1.0}, "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": "NNN", "jf_insertion": "", "mutated_invariants": [false, false, false], "in_frames": [true, true, true], "stops": [true, true, true], "loci": ["igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 348}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["e64fcd9e03"], "invalid": false, "v_gene": "IGHV5-51*01", "d_gene": "IGHD6-19*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.01098901098901099], "n_mutations": [4], "input_seqs": ["NNNGAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGGGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTCTCCTGGTGACTCTGATGCCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGCGAGACTAGGGTATAGCAGTGGCTGGTACTCGTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGACTCCTCAG"], "naive_seq": "NNNGAGGTGCAGCTGGTGCAGTCTGGAGCAGAGGTGAAAAAGCCCGGGGAGTCTCTGAAGATCTCCTGTAAGGGTTCTGGATACAGCTTTACCAGCTACTGGATCGGCTGGGTGCGCCAGATGCCCGGGAAAGGCCTGGAGTGGATGGGGATCATCTATCCTGGTGACTCTGATACCAGATACAGCCCGTCCTTCCAAGGCCAGGTCACCATCTCAGCCGACAAGTCCATCAGCACCGCCTACCTGCAGTGGAGCAGCCTGAAGGCCTCGGACACCGCCATGTATTACTGTGCGAGACTAGGGTATAGCAGTGGCTGGTACTCGTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV5-51*01": 1.0}, "d_per_gene_support": {"IGHD6-19*01": 0.9816252828850575, "IGHD6-13*01": 0.018374717114945146}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "v_3p_del": 1, "d_5p_del": 0, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TA", "dj_insertion": "TCG", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "loci": ["igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [false, false], "qr_gap_seqs": ["", ""], "gl_gap_seqs": ["", ""], "indel_reversed_seqs": ["", ""], "unique_ids": ["d024e5cab0", "822801f8ab"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.0, 0.0], "n_mutations": [0, 0], "input_seqs": ["NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV3-66*02": 1.0}, "d_per_gene_support": {"IGHD6-13*01": 0.9999990466130269, "IGHD6-19*01": 9.533869773964565e-07}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "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": "NNNNNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [true, true], "stops": [false, false], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 318}}, {"has_shm_indels": [false, false, false, false, false, true, true], "qr_gap_seqs": ["", "", "", "", "", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTAAGCTGTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGGACCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "gl_gap_seqs": ["", "", "", "", "", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGC.......TGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGG...CTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["", "", "", "", "", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["20a0129b57", "91796617a0", "4233d708fe", "97366cf0d8", "13de8675ec", "33aaa62e12", "31e052ee14"], "invalid": false, "v_gene": "IGHV1-18*01", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 51, "mut_freqs": [0.0027247956403269754, 0.0, 0.0, 0.0027247956403269754, 0.0, 0.0, 0.0], "n_mutations": [1, 0, 0, 1, 0, 0, 0], "input_seqs": ["NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTAGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTTCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTAAGCTGTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGGACCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", "", ""], "c_gene_seqs": ["", "", "", "", "", "", ""], "v_per_gene_support": {"IGHV1-18*01": 1.0}, "d_per_gene_support": {"IGHD6-13*01": 0.9999999999994316, "IGHD6-19*01": 5.698073919757748e-13}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "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": "NNN", "jf_insertion": "", "mutated_invariants": [false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true], "stops": [false, false, false, false, false, false, false], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 336}}, {"has_shm_indels": [false], "qr_gap_seqs": [""], "gl_gap_seqs": [""], "indel_reversed_seqs": [""], "unique_ids": ["401a542698"], "invalid": false, "v_gene": "IGHV4-4*09", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 48, "mut_freqs": [0.013850415512465374], "n_mutations": [5], "input_seqs": ["NNNNNNCAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGTACTTACTACTGGAGCTGGATCCGGCAGTCCCCAGGGAAGGGACTGGAGTGGATTGGGTACATCTATACCAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCAAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCCGTGTATTACTGTGCGAGTTATTTGCTCGGGTATAGTAGCAGAGCCCCTGTCTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNNNNCAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCATCAGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTACATCTATACCAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCCGCAGACACGGCCGTGTATTACTGTGCGAGTTATTTGCTCGGGTATAGCAGCAGAGCCCCTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV4-4*09": 1.0}, "d_per_gene_support": {"IGHD6-13*01": 0.9999996029153599, "IGHD6-19*01": 3.9708463321213133e-07}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "v_3p_del": 3, "d_5p_del": 0, "d_3p_del": 7, "j_5p_del": 7, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "TTATTTGCTC", "dj_insertion": "AGCCCC", "fv_insertion": "NNNNNN", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [true], "stops": [false], "loci": ["igh"], "codon_positions": {"v": 288, "j": 333}}, {"has_shm_indels": [false, false], "qr_gap_seqs": ["", ""], "gl_gap_seqs": ["", ""], "indel_reversed_seqs": ["", ""], "unique_ids": ["93c01dd961", "c761732a8b"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD1-20*01", "j_gene": "IGHJ4*02", "cdr3_length": 39, "mut_freqs": [0.002840909090909091, 0.005681818181818182], "n_mutations": [1, 2], "input_seqs": ["NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGGATTACTGTGCGAGAAGTATGATAACTGGTCTCAGAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACAAGGCTGTGGATTACTGTGCGAGAAGTATGATAACTGGTCTCAGAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGAAGTATGATAACTGGTCTCAGAGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV3-66*02": 1.0}, "d_per_gene_support": {"IGHD1-20*01": 1.0}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "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": "AGTATG", "dj_insertion": "TCTCAGA", "fv_insertion": "NNNNNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [true, true], "stops": [false, false], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 324}}, {"has_shm_indels": [false, true, false, false, false, false, false], "qr_gap_seqs": ["", "CAGGTGCAGCTGCAGGACTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGT.......CTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATG.....AGTGCTTACTACTACGAAGACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "", "", "", "", ""], "gl_gap_seqs": ["", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTATTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "", "", "", "", ""], "indel_reversed_seqs": ["", "CAGGTGCAGCTGCAGGACTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGCTTACTACTACGAAGACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "", "", "", "", ""], "unique_ids": ["bf50fa2017", "73d6c6e558", "162cb1691f", "c8a90cc3d7", "17f57acf2e", "948b83fb4d", "73431a9b10"], "invalid": false, "v_gene": "IGHV4-61*01", "d_gene": "IGHD3-22*01", "j_gene": "IGHJ1*01", "cdr3_length": 60, "mut_freqs": [0.0079155672823219, 0.010554089709762533, 0.0158311345646438, 0.018469656992084433, 0.013192612137203167, 0.010554089709762533, 0.013192612137203167], "n_mutations": [3, 4, 6, 7, 5, 4, 5], "input_seqs": ["CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAGGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGACTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGAGTGCTTACTACTACGAAGACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTAATACGAATACTTCCAGCACTGGGGCCAGGGCATCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAATCCTTCGGAGAGCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTAGTACAGTGGGAGCACCAACTACAACCCCTCCCTCAATAGTGGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCAGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGATTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGAGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCTCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGTACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAATTACAACCCCTCCCTCAGGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTATTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", "", ""], "c_gene_seqs": ["", "", "", "", "", "", ""], "v_per_gene_support": {"IGHV4-61*01": 1.0}, "d_per_gene_support": {"IGHD3-22*01": 1.0}, "j_per_gene_support": {"IGHJ1*01": 1.0}, "v_3p_del": 0, "d_5p_del": 0, "d_3p_del": 0, "j_5p_del": 3, "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], "in_frames": [true, true, true, true, true, true, true], "stops": [false, false, true, true, true, false, false], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 345}}, {"has_shm_indels": [true], "qr_gap_seqs": ["CAGGTGCAGCTGCAGGAGTCGGGACCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGATGCGAGTCACCATATCAGTAGACACGTCCAAGAACC............AGCTGAGCTCTGTGACCGCTGCGGACACGGCTGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCATTCCAGCACTGGAGCCAGGGCACCCTGGTCACCGTCTCCTCAG"], "gl_gap_seqs": ["CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTATTACTACGAATACTTACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG"], "indel_reversed_seqs": ["CAGGTGCAGCTGCAGGAGTCGGGACCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGATGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCTGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCATTCCAGCACTGGAGCCAGGGCACCCTGGTCACCGTCTCCTCAG"], "unique_ids": ["d8761c689a"], "invalid": false, "v_gene": "IGHV4-61*01", "d_gene": "IGHD3-22*01", "j_gene": "IGHJ1*01", "cdr3_length": 64, "mut_freqs": [0.020887728459530026], "n_mutations": [8], "input_seqs": ["CAGGTGCAGCTGCAGGAGTCGGGACCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGATGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGCTGAGCTCTGTGACCGCTGCGGACACGGCTGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCATTCCAGCACTGGAGCCAGGGCACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTATTACTACGAATACTTACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "duplicates": [[]], "leader_seqs": [""], "c_gene_seqs": [""], "v_per_gene_support": {"IGHV4-61*01": 1.0}, "d_per_gene_support": {"IGHD3-22*01": 1.0}, "j_per_gene_support": {"IGHJ1*01": 1.0}, "v_3p_del": 0, "d_5p_del": 0, "d_3p_del": 0, "j_5p_del": 6, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "GAATACT", "fv_insertion": "", "jf_insertion": "", "mutated_invariants": [false], "in_frames": [false], "stops": [false], "loci": ["igh"], "codon_positions": {"v": 288, "j": 349}}, {"has_shm_indels": [false, false], "qr_gap_seqs": ["", ""], "gl_gap_seqs": ["", ""], "indel_reversed_seqs": ["", ""], "unique_ids": ["226be79d5f", "188e1a0235"], "invalid": false, "v_gene": "IGHV3-23*01", "d_gene": "IGHD3-16*02", "j_gene": "IGHJ4*02", "cdr3_length": 54, "mut_freqs": [0.0, 0.0], "n_mutations": [0, 0], "input_seqs": ["NNNGAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAATTACGTTTGGGGGAGTTATCGTTATACCCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNGAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAATTACGTTTGGGGGAGTTATCGTTATACCCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNGAGGTGCAGCTGTTGGAGTCTGGGGGAGGCTTGGTACAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCTTTAGCAGCTATGCCATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGCTATTAGTGGTAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGGTTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTGCAAATGAACAGCCTGAGAGCCGAGGACACGGCCGTATATTACTGTGCGAAAGAATTACGTTTGGGGGAGTTATCGTTATACCCCTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], []], "leader_seqs": ["", ""], "c_gene_seqs": ["", ""], "v_per_gene_support": {"IGHV3-23*01": 1.0}, "d_per_gene_support": {"IGHD3-16*02": 1.0}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "v_3p_del": 0, "d_5p_del": 8, "d_3p_del": 0, "j_5p_del": 5, "v_5p_del": 0, "j_3p_del": 0, "vd_insertion": "", "dj_insertion": "CC", "fv_insertion": "NNN", "jf_insertion": "", "mutated_invariants": [false, false], "in_frames": [true, true], "stops": [false, false], "loci": ["igh", "igh"], "codon_positions": {"v": 288, "j": 339}}, {"has_shm_indels": [false, false, false, false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", "", ""], "unique_ids": ["8024ed1a22", "18f4019708", "ee25049b92", "efdea248af", "5fb484a8a6", "9c3cedb840", "648902c3e5", "f47122f1f5", "308de1d739"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.011560693641618497, 0.02023121387283237, 0.023121387283236993, 0.014450867052023121, 0.02023121387283237, 0.02023121387283237, 0.011560693641618497, 0.011560693641618497, 0.017341040462427744], "n_mutations": [4, 7, 8, 5, 7, 7, 4, 4, 6], "input_seqs": ["NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGACGGCTTGGTCCAGCCTGGGGGGTGCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCTAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGCCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTCGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGACACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCTGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACGTGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGTCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTTTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTATCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGGGTATTACTGTGCGAGATCTATCGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCTTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCCATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCGGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGGGCTGGGTCCGCCAGGCTCCAAGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTGAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", "", "", "", ""], "c_gene_seqs": ["", "", "", "", "", "", "", "", ""], "v_per_gene_support": {"IGHV3-66*02": 1.0}, "d_per_gene_support": {"IGHD6-13*01": 0.9999992936088454, "IGHD6-19*01": 7.063911568211231e-07}, "j_per_gene_support": {"IGHJ4*02": 1.0}, "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": "NNNNNN", "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, true, true, true], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 318}}]}

test/new-results/partition-new-simu/fasttree/iclust-0/fasttree.out

@@ -0,0 +1 @@
+((648902c3e5:0.0,8024ed1a22:0.0,f47122f1f5:0.0):0.00600,(ee25049b92:0.00602,9c3cedb840:0.00300)0.965:0.01209,(((5fb484a8a6:0.01508,efdea248af:0.00903)0.613:0.00055,(18f4019708:0.01511,308de1d739:0.01204)0.878:0.00055)0.544:0.00055,(XnaiveX:0.0,822801f8ab:0.0,d024e5cab0:0.0):0.00600)0.076:0.00055);

test/new-results/partition-new-simu/fasttree/iclust-0/input-seqs.fa

@@ -0,0 +1,24 @@
+>XnaiveX
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>18f4019708
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGACGGCTTGGTCCAGCCTGGGGGGTGCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCTAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGCCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>308de1d739
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCGGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGGGCTGGGTCCGCCAGGCTCCAAGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTGAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>5fb484a8a6
+NNNNNNGAGGTGCAGCTGGTGGAGTTTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTATCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGGGTATTACTGTGCGAGATCTATCGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCTTCTCCTCAG
+>648902c3e5
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>8024ed1a22
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>822801f8ab
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>d024e5cab0
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>ee25049b92
+NNNNNNGAGGTGCAGCTCGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGACACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>efdea248af
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCTGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACGTGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGTCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>f47122f1f5
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG
+>9c3cedb840
+NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCCATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG

test/new-results/partition-new-simu/fasttree/iclust-0/log

@@ -0,0 +1,23 @@
+run /home/runner/work/partis/partis/bin/FastTree-linux -gtr -nt -out /home/runner/work/partis/partis/test/new-results/partition-new-simu/fasttree/iclust-0/fasttree.out /home/runner/work/partis/partis/test/new-results/partition-new-simu/fasttree/iclust-0/input-seqs.fa
+FastTree Version 2.1.10 SSE3
+Alignment: /home/runner/work/partis/partis/test/new-results/partition-new-simu/fasttree/iclust-0/input-seqs.fa
+Nucleotide distances: Jukes-Cantor Joins: balanced Support: SH-like 1000
+Search: Normal +NNI +SPR (2 rounds range 10) +ML-NNI opt-each=1
+TopHits: 1.00*sqrtN close=default refresh=0.80
+ML Model: Generalized Time-Reversible, CAT approximation with 20 rate categories
+Ignored unknown character X (seen 48 times)
+Initial topology in 0.00 seconds
+Refining topology: 12 rounds ME-NNIs, 2 rounds ME-SPRs, 6 rounds ML-NNIs
+Total branch-length 0.082 after 0.00 sec
+ML-NNI round 1: LogLk = -668.065 NNIs 2 max delta 0.00 Time 0.01
+GTR Frequencies: 0.2215 0.2569 0.3074 0.2143
+GTR rates(ac ag at cg ct gt) 0.9755 0.9620 0.4555 0.6885 0.8030 1.0000
+Switched to using 20 rate categories (CAT approximation)
+Rate categories were divided by 0.641 so that average rate = 1.0
+CAT-based log-likelihoods may not be comparable across runs
+Use -gamma for approximate but comparable Gamma(20) log-likelihoods
+ML-NNI round 2: LogLk = -655.501 NNIs 1 max delta 0.00 Time 0.03
+Turning off heuristics for final round of ML NNIs (converged)
+ML-NNI round 3: LogLk = -655.501 NNIs 1 max delta 0.00 Time 0.04 (final)
+Optimize all lengths: LogLk = -655.501 Time 0.04
+Total time: 0.05 seconds Unique: 8/12 Bad splits: 0/5

test/new-results/partition-new-simu/fasttree/iclust-1/fasttree.out

@@ -0,0 +1 @@
+((XnaiveX:0.0,13de8675ec:0.0,31e052ee14:0.0,33aaa62e12:0.0,4233d708fe:0.0,91796617a0:0.0):0.00055,20a0129b57:0.00286,97366cf0d8:0.00286);