partis-bcr 1.0.8__py3-none-any.whl → 1.0.8.post1.dev1__py3-none-any.whl

test/ref-results/partition-new-simu/raxml/iclust-2/log

@@ -0,0 +1,420 @@
+run /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/run.sh
+
+RAxML-NG v. 1.2.1 released on 22.12.2023 by The Exelixis Lab.
+Developed by: Alexey M. Kozlov and Alexandros Stamatakis.
+Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth, Julia Haag, Anastasis Togkousidis.
+Latest version: https://github.com/amkozlov/raxml-ng
+Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml
+
+System: AMD EPYC 7763 64-Core Processor, 2 cores, 15 GB RAM
+
+RAxML-NG was called at 16-Aug-2025 23:08:18 as follows:
+
+/home/runner/work/partis/partis/bin/raxml-ng-linux --model GTR+G --msa /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa --msa-format FASTA
+
+Analysis options:
+  run mode: ML tree search
+  start tree(s): random (10) + parsimony (10)
+  random seed: 1755385698
+  tip-inner: OFF
+  pattern compression: ON
+  per-rate scalers: OFF
+  site repeats: ON
+  logLH epsilon: general: 10.000000, brlen-triplet: 1000.000000
+  fast spr radius: AUTO
+  spr subtree cutoff: 1.000000
+  fast CLV updates: ON
+  branch lengths: proportional (ML estimate, algorithm: NR-FAST)
+  SIMD kernels: AVX2
+  parallelization: coarse-grained (auto), PTHREADS (auto)
+
+[00:00:00] Reading alignment from file: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa
+[00:00:00] Loaded alignment with 8 taxa and 379 sites
+
+Alignment comprises 1 partitions and 21 patterns
+
+Partition 0: noname
+Model: GTR+FO+G4m
+Alignment sites / patterns: 379 / 21
+Gaps: 0.00 %
+Invariant sites: 94.46 %
+
+
+NOTE: Binary MSA file created: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.rba
+
+Parallelization scheme autoconfig: 2 worker(s) x 1 thread(s)
+
+[00:00:00] Generating 10 random starting tree(s) with 8 taxa
+[00:00:00] Generating 10 parsimony starting tree(s) with 8 taxa
+Parallel parsimony with 2 threads
+Parallel reduction/worker buffer size: 1 KB  / 0 KB
+
+[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 21 / 336
+[00:00:00] Data distribution: max. searches per worker: 10
+
+Starting ML tree search with 20 distinct starting trees
+
+[00:00:00 -940.256414] Initial branch length optimization
+[00:00:00 -685.977828] Model parameter optimization (eps = 10.000000)
+[00:00:00 -678.993028] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.003880] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.003880] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.336870] FAST spr round 1 (radius: 5)
+[00:00:00 -668.336870] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326800] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326800] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #1, logLikelihood: -668.326780
+
+[00:00:00 -950.265446] Initial branch length optimization
+[00:00:00 -697.593380] Model parameter optimization (eps = 10.000000)
+[00:00:00] [worker #1] ML tree search #2, logLikelihood: -668.326779
+[00:00:00 -688.738192] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.529208] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.529208] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.342939] FAST spr round 1 (radius: 5)
+[00:00:00 -668.342939] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326813] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326813] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #3, logLikelihood: -668.326779
+
+[00:00:00 -942.860420] Initial branch length optimization
+[00:00:00 -688.360957] Model parameter optimization (eps = 10.000000)
+[00:00:00] [worker #1] ML tree search #4, logLikelihood: -668.326778
+[00:00:00 -680.554813] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.391658] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.391658] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.343119] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343119] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326813] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326813] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #5, logLikelihood: -668.326779
+
+[00:00:00 -947.813809] Initial branch length optimization
+[00:00:00] [worker #1] ML tree search #6, logLikelihood: -668.326779
+[00:00:00 -697.592998] Model parameter optimization (eps = 10.000000)
+[00:00:00 -688.738207] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.537752] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.537752] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.343682] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343682] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326816] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326816] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #7, logLikelihood: -668.326779
+
+[00:00:00 -947.585600] Initial branch length optimization
+[00:00:00 -695.422647] Model parameter optimization (eps = 10.000000)
+[00:00:00 -687.554038] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.522689] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.522689] Model parameter optimization (eps = 3.000000)
+[00:00:00] [worker #1] ML tree search #8, logLikelihood: -668.326779
+[00:00:00 -668.343606] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343606] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326815] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326815] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #9, logLikelihood: -668.326780
+
+[00:00:00 -934.239923] Initial branch length optimization
+[00:00:00 -675.639483] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.360350] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.360350] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.360350] Model parameter optimization (eps = 3.000000)
+[00:00:00] [worker #1] ML tree search #10, logLikelihood: -668.326779
+[00:00:00 -668.326788] FAST spr round 1 (radius: 5)
+[00:00:00 -668.326788] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326781] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326781] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #11, logLikelihood: -668.326780
+
+[00:00:00 -934.232575] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+[00:00:00] [worker #1] ML tree search #12, logLikelihood: -668.326780
+[00:00:00 -668.362653] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362653] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362653] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.326788] FAST spr round 1 (radius: 5)
+[00:00:00 -668.326788] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326780] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326780] Model parameter optimization (eps = 0.100000)
+[00:00:00] [worker #1] ML tree search #14, logLikelihood: -668.326780
+
+[00:00:00] [worker #0] ML tree search #13, logLikelihood: -668.326779
+
+[00:00:00 -934.232575] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.362653] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362653] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362653] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.326788] FAST spr round 1 (radius: 5)
+[00:00:00 -668.326788] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326780] SLOW spr round 1 (radius: 5)
+[00:00:00] [worker #1] ML tree search #16, logLikelihood: -668.326780
+[00:00:00 -668.326780] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #15, logLikelihood: -668.326779
+
+[00:00:00 -934.234974] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.362656] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362656] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362656] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.326788] FAST spr round 1 (radius: 5)
+[00:00:00 -668.326788] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326780] SLOW spr round 1 (radius: 5)
+[00:00:00] [worker #1] ML tree search #18, logLikelihood: -668.326779
+[00:00:00 -668.326780] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #17, logLikelihood: -668.326779
+
+[00:00:00 -934.237524] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.362658] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362658] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362658] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.326789] FAST spr round 1 (radius: 5)
+[00:00:00 -668.326789] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326781] SLOW spr round 1 (radius: 5)
+[00:00:00] [worker #1] ML tree search #20, logLikelihood: -668.326780
+[00:00:00 -668.326781] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #19, logLikelihood: -668.326780
+
+
+Optimized model parameters:
+
+   Partition 0: noname
+   Rate heterogeneity: GAMMA (4 cats, mean),  alpha: 99.846068 (ML),  weights&rates: (0.250000,0.875813) (0.250000,0.964710) (0.250000,1.029570) (0.250000,1.129908) 
+   Base frequencies (ML): 0.220278 0.272199 0.286214 0.221308 
+   Substitution rates (ML): 0.615177 0.198624 0.258666 0.788804 1.245919 1.000000 
+
+
+Final LogLikelihood: -668.326778
+
+AIC score: 1380.653557 / AICc score: 1383.496254 / BIC score: 1467.279354
+Free parameters (model + branch lengths): 22
+
+WARNING: Best ML tree contains 2 near-zero branches!
+
+Best ML tree with collapsed near-zero branches saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestTreeCollapsed
+Best ML tree saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestTree
+All ML trees saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.mlTrees
+Optimized model saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.bestModel
+
+Execution log saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.log
+
+Analysis started: 16-Aug-2025 23:08:18 / finished: 16-Aug-2025 23:08:18
+
+Elapsed time: 0.315 seconds
+
+
+RAxML-NG v. 1.2.1 released on 22.12.2023 by The Exelixis Lab.
+Developed by: Alexey M. Kozlov and Alexandros Stamatakis.
+Contributors: Diego Darriba, Tomas Flouri, Benoit Morel, Sarah Lutteropp, Ben Bettisworth, Julia Haag, Anastasis Togkousidis.
+Latest version: https://github.com/amkozlov/raxml-ng
+Questions/problems/suggestions? Please visit: https://groups.google.com/forum/#!forum/raxml
+
+System: AMD EPYC 7763 64-Core Processor, 2 cores, 15 GB RAM
+
+RAxML-NG was called at 16-Aug-2025 23:08:18 as follows:
+
+/home/runner/work/partis/partis/bin/raxml-ng-linux --model GTR+G --msa /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa --msa-format FASTA --ancestral --tree /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralTree
+
+Analysis options:
+  run mode: Ancestral state reconstruction
+  start tree(s): user
+  random seed: 1755385698
+  tip-inner: ON
+  pattern compression: OFF
+  per-rate scalers: OFF
+  site repeats: OFF
+  logLH epsilon: general: 10.000000, brlen-triplet: 1000.000000
+  branch lengths: proportional (ML estimate, algorithm: NR-FAST)
+  SIMD kernels: AVX2
+  parallelization: coarse-grained (auto), PTHREADS (auto)
+
+[00:00:00] Reading alignment from file: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa
+[00:00:00] Loaded alignment with 8 taxa and 379 sites
+
+Alignment comprises 1 partitions and 379 sites
+
+Partition 0: noname
+Model: GTR+FO+G4m
+Alignment sites: 379
+Gaps: 0.00 %
+Invariant sites: 94.46 %
+
+
+NOTE: Binary MSA file already exists: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.rba
+
+Parallelization scheme autoconfig: 1 worker(s) x 2 thread(s)
+
+Parallel reduction/worker buffer size: 1 KB  / 0 KB
+
+[00:00:00] Data distribution: max. partitions/sites/weight per thread: 1 / 190 / 3040
+[00:00:00] Data distribution: max. searches per worker: 20
+
+Starting ML tree search with 20 distinct starting trees
+
+[00:00:00] Tree #1, initial LogLikelihood: -940.256414
+
+[00:00:00 -940.256414] Initial branch length optimization
+[00:00:00 -685.977828] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #1, final logLikelihood: -678.993028
+
+[00:00:00] Tree #2, initial LogLikelihood: -949.421829
+
+[00:00:00 -949.421829] Initial branch length optimization
+[00:00:00 -697.593753] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #2, final logLikelihood: -688.737800
+
+[00:00:00] Tree #3, initial LogLikelihood: -950.265446
+
+[00:00:00 -950.265446] Initial branch length optimization
+[00:00:00 -697.593380] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #3, final logLikelihood: -688.738192
+
+[00:00:00] Tree #4, initial LogLikelihood: -947.570123
+
+[00:00:00 -947.570123] Initial branch length optimization
+[00:00:00 -694.573838] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #4, final logLikelihood: -686.736242
+
+[00:00:00] Tree #5, initial LogLikelihood: -942.860420
+
+[00:00:00 -942.860420] Initial branch length optimization
+[00:00:00 -688.360957] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #5, final logLikelihood: -680.554813
+
+[00:00:00] Tree #6, initial LogLikelihood: -950.363794
+
+[00:00:00 -950.363794] Initial branch length optimization
+[00:00:00 -697.593306] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #6, final logLikelihood: -688.738173
+
+[00:00:00] Tree #7, initial LogLikelihood: -947.813809
+
+[00:00:00 -947.813809] Initial branch length optimization
+[00:00:00 -697.592998] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #7, final logLikelihood: -688.738217
+
+[00:00:00] Tree #8, initial LogLikelihood: -949.688470
+
+[00:00:00 -949.688470] Initial branch length optimization
+[00:00:00 -697.593383] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #8, final logLikelihood: -688.737968
+
+[00:00:00] Tree #9, initial LogLikelihood: -947.585600
+
+[00:00:00 -947.585600] Initial branch length optimization
+[00:00:00 -695.422647] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #9, final logLikelihood: -687.554038
+
+[00:00:00] Tree #10, initial LogLikelihood: -947.781745
+
+[00:00:00 -947.781745] Initial branch length optimization
+[00:00:00 -697.592838] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #10, final logLikelihood: -688.737694
+
+[00:00:00] Tree #11, initial LogLikelihood: -934.239923
+
+[00:00:00 -934.239923] Initial branch length optimization
+[00:00:00 -675.639483] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #11, final logLikelihood: -668.360350
+
+[00:00:00] Tree #12, initial LogLikelihood: -934.225153
+
+[00:00:00 -934.225153] Initial branch length optimization
+[00:00:00 -674.849075] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #12, final logLikelihood: -668.362574
+
+[00:00:00] Tree #13, initial LogLikelihood: -934.232575
+
+[00:00:00 -934.232575] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #13, final logLikelihood: -668.362653
+
+[00:00:00] Tree #14, initial LogLikelihood: -934.237524
+
+[00:00:00 -934.237524] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #14, final logLikelihood: -668.362660
+
+[00:00:00] Tree #15, initial LogLikelihood: -934.232575
+
+[00:00:00 -934.232575] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #15, final logLikelihood: -668.362653
+
+[00:00:00] Tree #16, initial LogLikelihood: -934.239923
+
+[00:00:00 -934.239923] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #16, final logLikelihood: -668.362655
+
+[00:00:00] Tree #17, initial LogLikelihood: -934.234974
+
+[00:00:00 -934.234974] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #17, final logLikelihood: -668.362656
+
+[00:00:00] Tree #18, initial LogLikelihood: -934.232575
+
+[00:00:00 -934.232575] Initial branch length optimization
+[00:00:00 -674.849046] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #18, final logLikelihood: -668.362643
+
+[00:00:00] Tree #19, initial LogLikelihood: -934.237524
+
+[00:00:00 -934.237524] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #19, final logLikelihood: -668.362658
+
+[00:00:00] Tree #20, initial LogLikelihood: -934.225153
+
+[00:00:00 -934.225153] Initial branch length optimization
+[00:00:00 -674.849340] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #20, final logLikelihood: -668.362395
+
+
+Optimized model parameters:
+
+   Partition 0: noname
+   Rate heterogeneity: GAMMA (4 cats, mean),  alpha: 99.862306 (ML),  weights&rates: (0.250000,0.875822) (0.250000,0.964713) (0.250000,1.029567) (0.250000,1.129897) 
+   Base frequencies (ML): 0.220277 0.272445 0.285559 0.221719 
+   Substitution rates (ML): 0.584621 0.196468 0.229582 0.860189 1.199731 1.000000 
+
+Marginal ancestral probabilities saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralProbs
+Reconstructed ancestral sequences saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralStates
+Node-labeled tree saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralTree
+
+Execution log saved to: /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.log
+
+Analysis started: 16-Aug-2025 23:08:18 / finished: 16-Aug-2025 23:08:18
+
+Elapsed time: 0.358 seconds
+

test/ref-results/partition-new-simu/raxml/iclust-2/run.sh

@@ -0,0 +1,3 @@
+#!/bin/bash
+/home/runner/work/partis/partis/bin/raxml-ng-linux --model GTR+G --msa /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa --msa-format FASTA
+/home/runner/work/partis/partis/bin/raxml-ng-linux --model GTR+G --msa /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa --msa-format FASTA --ancestral --tree /home/runner/work/partis/partis/test/ref-results/partition-new-simu/raxml/iclust-2/input-seqs.fa.raxml.ancestralTree

test/ref-results/partition-new-simu/raxml-annotations.yaml

@@ -0,0 +1 @@
+{"version-info": {"partis-yaml": 0.1, "partis-git": {"commit": "3d759975d125203c297c47325f43244d8de1bfda", "tag": "v1.0.8", "n_ahead_of_tag": "1"}}, "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": 3, "n_procs": 1, "partition": [["18f4019708", "308de1d739", "5fb484a8a6", "648902c3e5", "8024ed1a22", "822801f8ab", "d024e5cab0", "ee25049b92", "efdea248af", "f47122f1f5", "9c3cedb840", "Node3", "Node4", "Node5", "Node6", "Node7", "Node8"], ["13de8675ec", "20a0129b57", "31e052ee14", "33aaa62e12", "4233d708fe", "91796617a0", "97366cf0d8"], ["162cb1691f", "17f57acf2e", "73431a9b10", "73d6c6e558", "948b83fb4d", "bf50fa2017", "c8a90cc3d7", "Node2", "Node3", "Node4", "Node5", "Node6"]]}], "events": [{"has_shm_indels": [false, false, false, false, false, false, false, false, false, false, false, false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "", "", "", "", "", "", "", "", "", "", "", "", "", ""], "unique_ids": ["18f4019708", "308de1d739", "5fb484a8a6", "648902c3e5", "8024ed1a22", "822801f8ab", "d024e5cab0", "ee25049b92", "efdea248af", "f47122f1f5", "9c3cedb840", "Node3", "Node4", "Node5", "Node6", "Node7", "Node8"], "invalid": false, "v_gene": "IGHV3-66*02", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 33, "mut_freqs": [0.02023121387283237, 0.017341040462427744, 0.02023121387283237, 0.011560693641618497, 0.011560693641618497, 0.0, 0.0, 0.023121387283236993, 0.014450867052023121, 0.011560693641618497, 0.02023121387283237, 0.005780346820809248, 0.005780346820809248, 0.005780346820809248, 0.017341040462427744, 0.005780346820809248, 0.005780346820809248], "n_mutations": [7, 6, 7, 4, 4, 0, 0, 8, 5, 4, 7, 2, 2, 2, 6, 2, 2], "input_seqs": ["NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGACGGCTTGGTCCAGCCTGGGGGGTGCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCTAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGCCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCGGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGGGCTGGGTCCGCCAGGCTCCAAGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTGAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTTTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTATCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGGGTATTACTGTGCGAGATCTATCGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCTTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTCGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGACACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCTGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACGTGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGTCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCCATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], [], [], [], [], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", "", "", "", "", "", "", null, null, null, null, null, null], "c_gene_seqs": ["", "", "", "", "", "", "", "", "", "", "", null, null, null, null, null, null], "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, false, false, false, false, false, false, false, false, false, false, false, false, false, false, false], "in_frames": [true, true, true, true, true, true, true, true, true, true, true, true, true, true, true, true, true], "stops": [true, true, true, true, true, false, false, true, true, true, true, true, true, true, true, true, true], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", "igh", null, null, null, null, null, null], "codon_positions": {"v": 288, "j": 318}, "tree-info": {"lb": {"tree": "[&R] ((d024e5cab0:1e-06,(efdea248af:0.00873,(308de1d739:0.011636,(5fb484a8a6:0.014574,((ee25049b92:0.005817,9c3cedb840:0.002896)Node6:0.011689,(18f4019708:0.014595,((f47122f1f5:1e-06)648902c3e5:1e-06)8024ed1a22:0.005797)Node8:1e-06)Node7:1e-06)Node5:1e-06)Node4:1e-06)Node3:0.005798)822801f8ab:1e-06)XnaiveX;\n", "cons-dist-aa": {"18f4019708": -3, "308de1d739": -3, "5fb484a8a6": -3, "648902c3e5": -2, "8024ed1a22": -2, "822801f8ab": -2, "d024e5cab0": -2, "ee25049b92": -5, "efdea248af": -2, "f47122f1f5": -2, "9c3cedb840": -4, "Node3": 0, "Node4": 0, "Node5": 0, "Node6": -4, "Node7": 0, "Node8": 0}, "lbi": {"d024e5cab0": 0.28013970011757816, "efdea248af": 0.03871974633146609, "308de1d739": 0.013839327627624387, "5fb484a8a6": 0.0049095286010898374, "ee25049b92": 0.01598098817929183, "9c3cedb840": 0.059117001380043624, "Node6": 0.2741694908009397, "18f4019708": 0.004871853254118657, "f47122f1f5": 0.11051351329287193, "648902c3e5": 0.1106131669020086, "8024ed1a22": 0.11071281283020162, "Node8": 1.0011663360410088, "Node7": 1.0013530219709632, "Node5": 1.001417284686737, "Node4": 1.0013608556060134, "Node3": 1.0011850379471843, "822801f8ab": 0.28029907265439125, "XnaiveX": 0.2802611652342305}, "lbr": {"d024e5cab0": 0.0, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "ee25049b92": 0.0, "9c3cedb840": 0.0, "Node6": 1.400496127950684, "18f4019708": 0.0, "f47122f1f5": 0.0, "648902c3e5": 0.00021453142633598765, "8024ed1a22": 0.00042892839254483493, "Node8": 0.3776791538710915, "Node7": 0.7310204879544885, "Node5": 1.3166163640035902, "Node4": 2.4818336656991944, "Node3": 5.800194817170269, "822801f8ab": 1.6240597975338507, "XnaiveX": 0.0}, "lbf": {"d024e5cab0": 0.0, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "ee25049b92": 0.0, "9c3cedb840": 0.0, "Node6": 3.9019593993559285, "18f4019708": 0.0, "f47122f1f5": 0.0, "648902c3e5": 0.0009093517848880102, "8024ed1a22": 0.0018183835342772917, "Node8": 4.8169523682574, "Node7": 7.421536597233101, "Node5": 9.988387768420546, "Node4": 12.526624001322851, "Node3": 14.987374866454802, "822801f8ab": 4.1961209611532, "XnaiveX": 4.1955535382873475}, "aa-tree": "[&R] ((d024e5cab0:0.0,(efdea248af:0.017391304347826087,(308de1d739:0.02608695652173913,(5fb484a8a6:0.02608695652173913,((ee25049b92:0.008695652173913044,9c3cedb840:0.0)Node6:0.034782608695652174,(18f4019708:0.02608695652173913,((f47122f1f5:0.0)648902c3e5:0.0)8024ed1a22:0.017391304347826087)Node8:0.0)Node7:0.0)Node5:0.0)Node4:0.0)Node3:0.017391304347826087)822801f8ab:0.0)XnaiveX;\n", "aa-lbi": {"d024e5cab0": 0.17448865459090154, "efdea248af": 0.0018930691410535422, "308de1d739": 8.864737736556591e-05, "5fb484a8a6": 8.864737736556591e-05, "ee25049b92": 1.945447201385015e-07, "9c3cedb840": 0.16452242448111604, "Node6": 0.16452242448111604, "18f4019708": 8.864737736556591e-05, "f47122f1f5": 0.0018930691410535422, "648902c3e5": 0.0018930691410535422, "8024ed1a22": 0.0018930691410535422, "Node8": 1.0348146173410304, "Node7": 1.0348146173410304, "Node5": 1.0348146173410304, "Node4": 1.0348146173410304, "Node3": 1.0348146173410304, "822801f8ab": 0.17448865459090154, "XnaiveX": 0.17448865459090154}, "aa-lbr": {"d024e5cab0": 0.0, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "ee25049b92": 0.0, "9c3cedb840": 0.0, "Node6": 0.9531301271264627, "18f4019708": 0.0, "f47122f1f5": 0.0, "648902c3e5": 0.0, "8024ed1a22": 0.0, "Node8": 0.3997324287709813, "Node7": 0.7498755743610026, "Node5": 1.3335544730896007, "Node4": 2.5014934094937216, "Node3": 5.995302664013174, "822801f8ab": 1.0110087688947065, "XnaiveX": 0.0}, "aa-lbf": {"d024e5cab0": 0.0, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "ee25049b92": 0.0, "9c3cedb840": 0.0, "Node6": 1.3383712061198856, "18f4019708": 0.0, "f47122f1f5": 0.0, "648902c3e5": 0.0, "8024ed1a22": 0.0, "Node8": 2.8050768436614284, "Node7": 4.209227930987333, "Node5": 5.613234971555671, "Node4": 7.017242012124009, "Node3": 8.4183118152171, "822801f8ab": 1.419544932286631, "XnaiveX": 1.419544932286631}}}}, {"has_shm_indels": [false, false, true, true, false, false, false], "qr_gap_seqs": ["", "", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGGACCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTAAGCTGTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", ""], "gl_gap_seqs": ["", "", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGG...CTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGC.......TGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", ""], "indel_reversed_seqs": ["", "", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "", "", ""], "unique_ids": ["13de8675ec", "20a0129b57", "31e052ee14", "33aaa62e12", "4233d708fe", "91796617a0", "97366cf0d8"], "invalid": false, "v_gene": "IGHV1-18*01", "d_gene": "IGHD6-13*01", "j_gene": "IGHJ4*02", "cdr3_length": 51, "mut_freqs": [0.0, 0.0027247956403269754, 0.0, 0.0, 0.0, 0.0, 0.0027247956403269754], "n_mutations": [0, 1, 0, 0, 0, 0, 1], "input_seqs": ["NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTAGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGGACCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTAAGCTGTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTTCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "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, false, true, true, true], "stops": [false, false, false, true, false, false, false], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh"], "codon_positions": {"v": 288, "j": 336}, "tree-info": {"lb": {"tree": "[&R] ((((97366cf0d8:0.00273,((20a0129b57:0.00273)33aaa62e12:1e-06)4233d708fe:1e-06)13de8675ec:1e-06)31e052ee14:1e-06)91796617a0:1e-06)XnaiveX;\n", "cons-dist-aa": {"13de8675ec": 0, "20a0129b57": 0, "31e052ee14": 0, "33aaa62e12": 0, "4233d708fe": 0, "91796617a0": 0, "97366cf0d8": 0}, "lbi": {"97366cf0d8": 0.0398820964949402, "20a0129b57": 0.039835715091966914, "33aaa62e12": 0.21885661744682694, "4233d708fe": 0.21892029302830154, "13de8675ec": 0.21898397500902772, "31e052ee14": 0.21896665359801457, "91796617a0": 0.21894933859259968, "XnaiveX": 0.21893202999041267}, "lbr": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "33aaa62e12": 0.3888074011682412, "4233d708fe": 0.38883388299041577, "13de8675ec": 1.2719619593362566, "31e052ee14": 1.2718613901477076, "91796617a0": 1.2717608581752964, "XnaiveX": 0.0}, "lbf": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "33aaa62e12": 5.288760573324845, "4233d708fe": 5.289881202683325, "13de8675ec": 10.579761990810486, "31e052ee14": 10.578925311768877, "91796617a0": 10.578088942241255, "XnaiveX": 10.577252882113111}, "aa-tree": "[&R] ((((97366cf0d8:0.0,((20a0129b57:0.0)33aaa62e12:0.0)4233d708fe:0.0)13de8675ec:0.0)31e052ee14:0.0)91796617a0:0.0)XnaiveX;\n", "aa-lbi": {"97366cf0d8": -7.816792314480525e-06, "20a0129b57": -7.816792314480525e-06, "33aaa62e12": -7.816792314480525e-06, "4233d708fe": -7.816792314480525e-06, "13de8675ec": -7.816792314480525e-06, "31e052ee14": -7.816792314480525e-06, "91796617a0": -7.816792314480525e-06, "XnaiveX": -7.816792314480525e-06}, "aa-lbr": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "33aaa62e12": 0.0, "4233d708fe": 0.0, "13de8675ec": 0.0, "31e052ee14": 0.0, "91796617a0": 0.0, "XnaiveX": 0.0}, "aa-lbf": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "33aaa62e12": 0.0, "4233d708fe": 0.0, "13de8675ec": 0.0, "31e052ee14": 0.0, "91796617a0": 0.0, "XnaiveX": 0.0}}}}, {"has_shm_indels": [false, false, false, true, false, false, false, false, false, false, false, false], "qr_gap_seqs": ["", "", "", "CAGGTGCAGCTGCAGGACTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGT.......CTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATG.....AGTGCTTACTACTACGAAGACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "", "", "", "", "", "", "", ""], "gl_gap_seqs": ["", "", "", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTATTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "", "", "", "", "", "", "", ""], "indel_reversed_seqs": ["", "", "", "CAGGTGCAGCTGCAGGACTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGCTTACTACTACGAAGACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "", "", "", "", "", "", "", ""], "unique_ids": ["162cb1691f", "17f57acf2e", "73431a9b10", "73d6c6e558", "948b83fb4d", "bf50fa2017", "c8a90cc3d7", "Node2", "Node3", "Node4", "Node5", "Node6"], "invalid": false, "v_gene": "IGHV4-61*01", "d_gene": "IGHD3-22*01", "j_gene": "IGHJ1*01", "cdr3_length": 60, "mut_freqs": [0.0158311345646438, 0.013192612137203167, 0.013192612137203167, 0.010554089709762533, 0.010554089709762533, 0.0079155672823219, 0.018469656992084433, 0.005277044854881266, 0.002638522427440633, 0.002638522427440633, 0.010554089709762533, 0.005277044854881266], "n_mutations": [6, 5, 5, 4, 4, 3, 7, 2, 1, 1, 4, 2], "input_seqs": ["CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTAATACGAATACTTCCAGCACTGGGGCCAGGGCATCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGATTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGTACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAATTACAACCCCTCCCTCAGGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGACTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGAGTGCTTACTACTACGAAGACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGAGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCTCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAGGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAATCCTTCGGAGAGCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTAGTACAGTGGGAGCACCAACTACAACCCCTCCCTCAATAGTGGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCAGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTATTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", "", "", null, null, null, null, null], "c_gene_seqs": ["", "", "", "", "", "", "", null, null, null, null, null], "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, false, false, false, false, false], "in_frames": [true, true, true, false, true, true, true, true, true, true, true, true], "stops": [true, true, false, true, false, false, true, false, false, false, true, false], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", null, null, null, null, null], "codon_positions": {"v": 288, "j": 345}, "tree-info": {"lb": {"tree": "[&R] ((73d6c6e558:0.007947,(c8a90cc3d7:0.016006,(((73431a9b10:0.005284)bf50fa2017:0.002644,948b83fb4d:0.005307)Node2:1e-06,(17f57acf2e:0.002631,162cb1691f:0.005305)Node5:0.005307)Node6:0.00264)Node4:1e-06)Node3:0.002638)XnaiveX;\n", "cons-dist-aa": {"162cb1691f": -4, "17f57acf2e": -2, "73431a9b10": -1, "73d6c6e558": -4, "948b83fb4d": -1, "bf50fa2017": -1, "c8a90cc3d7": -6, "Node2": 0, "Node3": -1, "Node4": -1, "Node5": -2, "Node6": 0}, "lbi": {"73d6c6e558": 0.022799510132213843, "c8a90cc3d7": 0.001056434058993544, "73431a9b10": 0.022614255060829053, "bf50fa2017": 0.3166022141298583, "948b83fb4d": 0.0630077874734111, "Node2": 0.6201488280606873, "17f57acf2e": 0.07660624159650432, "162cb1691f": 0.022382213921707583, "Node5": 0.3163925422639592, "Node6": 0.6202119159114495, "Node4": 0.627322047757662, "Node3": 0.6272737813648113, "XnaiveX": 0.33971652744709196}, "lbr": {"73d6c6e558": 0.0, "c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 0.4385987976075003, "948b83fb4d": 0.0, "Node2": 0.6529706145476889, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node5": 1.1182187550282396, "Node6": 1.679723618450376, "Node4": 1.3791634750659674, "Node3": 3.640178631170476, "XnaiveX": 0.0}, "lbf": {"73d6c6e558": 0.0, "c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 2.780124548468202, "948b83fb4d": 0.0, "Node2": 5.838568114013189, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node5": 4.811784713088172, "Node6": 9.26531617527877, "Node4": 8.64535296331656, "Node3": 11.699116002773895, "XnaiveX": 6.336079187247609}, "aa-tree": "[&R] ((73d6c6e558:0.023809523809523808,(c8a90cc3d7:0.03968253968253968,(((73431a9b10:0.0)bf50fa2017:0.007936507936507936,948b83fb4d:0.007936507936507936)Node2:0.0,(17f57acf2e:0.0,162cb1691f:0.015873015873015872)Node5:0.015873015873015872)Node6:0.007936507936507936)Node4:0.0)Node3:0.0)XnaiveX;\n", "aa-lbi": {"73d6c6e558": 4.3481144978049015e-05, "c8a90cc3d7": 1.0607562094404073e-07, "73431a9b10": 0.017443587693578136, "bf50fa2017": 0.017443587693578136, "948b83fb4d": 0.017443587693578136, "Node2": 0.5169670843045983, "17f57acf2e": 0.1727435913001429, "162cb1691f": 2.05140302349672e-06, "Node5": 0.1727435913001429, "Node6": 0.5169670843045983, "Node4": 0.5331232824754037, "Node3": 0.5331232824754035, "XnaiveX": 0.5331232824754037}, "aa-lbr": {"73d6c6e558": 0.0, "c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 0.0, "948b83fb4d": 0.0, "Node2": 0.905868885568473, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node5": 0.9927164071332475, "Node6": 2.6403923115855674, "Node4": 1.047040340433685, "Node3": 3.0939269283638917, "XnaiveX": 0.0}, "aa-lbf": {"73d6c6e558": 0.0, "c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 0.0, "948b83fb4d": 0.0, "Node2": 3.449284936153087, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node5": 1.8098285902400761, "Node6": 5.2635289969173735, "Node4": 3.7988808967639036, "Node3": 5.61291712745328, "XnaiveX": 5.61291712745328}}}}]}