partis-bcr 1.0.8__py3-none-any.whl → 1.0.9.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 18-Aug-2025 15:31:54 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: 1755531114
+  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 -950.326762] Initial branch length optimization
+[00:00:00 -697.593427] Model parameter optimization (eps = 10.000000)
+[00:00:00 -688.738075] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.531564] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.531564] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.343257] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343257] Model parameter optimization (eps = 1.000000)
+[00:00:00 -668.326814] SLOW spr round 1 (radius: 5)
+[00:00:00 -668.326814] Model parameter optimization (eps = 0.100000)
+[00:00:00] [worker #1] ML tree search #2, logLikelihood: -668.326779
+
+[00:00:00] [worker #0] ML tree search #1, logLikelihood: -668.326780
+
+[00:00:00 -950.215964] Initial branch length optimization
+[00:00:00 -697.593352] Model parameter optimization (eps = 10.000000)
+[00:00:00 -688.738137] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.531577] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.531577] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.343396] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343396] 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 #3, logLikelihood: -668.326780
+
+[00:00:00] [worker #1] ML tree search #4, logLikelihood: -668.326779
+[00:00:00 -946.313033] Initial branch length optimization
+[00:00:00 -695.420145] Model parameter optimization (eps = 10.000000)
+[00:00:00 -687.553906] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.527039] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.527039] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.343883] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343883] 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 #5, logLikelihood: -668.326779
+
+[00:00:00] [worker #1] ML tree search #6, logLikelihood: -668.326779
+[00:00:00 -947.519464] Initial branch length optimization
+[00:00:00 -693.948036] Model parameter optimization (eps = 10.000000)
+[00:00:00 -686.112824] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.517086] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.517086] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.343578] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343578] 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 #7, logLikelihood: -668.326779
+
+[00:00:00 -950.242456] Initial branch length optimization
+[00:00:00 -697.593476] Model parameter optimization (eps = 10.000000)
+[00:00:00 -688.738021] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -670.530861] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -670.530861] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.343415] FAST spr round 1 (radius: 5)
+[00:00:00 -668.343415] 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 #1] ML tree search #8, logLikelihood: -668.326779
+
+[00:00:00] [worker #0] ML tree search #9, logLikelihood: -668.326779
+
+[00:00:00 -934.234974] Initial branch length optimization
+[00:00:00 -674.849261] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.362419] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362419] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362419] 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 #0] ML tree search #11, logLikelihood: -668.326779
+
+[00:00:00 -934.239923] 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 -668.326789] FAST spr round 1 (radius: 5)
+[00:00:00] [worker #1] ML tree search #10, logLikelihood: -668.326779
+[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 -668.326781] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #13, logLikelihood: -668.326780
+
+[00:00:00 -934.234974] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.362655] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362655] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362655] 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 #12, 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 -934.237570] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.362659] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362659] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362659] 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 #14, logLikelihood: -668.326780
+[00:00:00 -668.326781] Model parameter optimization (eps = 0.100000)
+
+[00:00:00] [worker #0] ML tree search #17, logLikelihood: -668.326780
+
+[00:00:00 -934.225153] Initial branch length optimization
+[00:00:00 -674.849233] Model parameter optimization (eps = 10.000000)
+[00:00:00 -668.362478] AUTODETECT spr round 1 (radius: 5)
+[00:00:00 -668.362478] SPR radius for FAST iterations: 5 (autodetect)
+[00:00:00 -668.362478] Model parameter optimization (eps = 3.000000)
+[00:00:00 -668.326788] FAST spr round 1 (radius: 5)
+[00:00:00] [worker #1] ML tree search #16, logLikelihood: -668.326780
+[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 #0] ML tree search #19, logLikelihood: -668.326780
+
+[00:00:00] [worker #1] ML tree search #18, logLikelihood: -668.326780
+[00:00:00] [worker #1] ML tree search #20, logLikelihood: -668.326779
+
+Optimized model parameters:
+
+   Partition 0: noname
+   Rate heterogeneity: GAMMA (4 cats, mean),  alpha: 99.846063 (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 0.286215 0.221308 
+   Substitution rates (ML): 0.615226 0.198610 0.258677 0.788773 1.245925 1.000000 
+
+
+Final LogLikelihood: -668.326779
+
+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: 18-Aug-2025 15:31:54 / finished: 18-Aug-2025 15:31:54
+
+Elapsed time: 0.331 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 18-Aug-2025 15:31:54 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: 1755531114
+  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: -950.326762
+
+[00:00:00 -950.326762] Initial branch length optimization
+[00:00:00 -697.593427] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #1, final logLikelihood: -688.738075
+
+[00:00:00] Tree #2, initial LogLikelihood: -946.063936
+
+[00:00:00 -946.063936] Initial branch length optimization
+[00:00:00 -692.069744] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #2, final logLikelihood: -683.141442
+
+[00:00:00] Tree #3, initial LogLikelihood: -950.215964
+
+[00:00:00 -950.215964] Initial branch length optimization
+[00:00:00 -697.593352] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #3, final logLikelihood: -688.738138
+
+[00:00:00] Tree #4, initial LogLikelihood: -949.699412
+
+[00:00:00 -949.699412] Initial branch length optimization
+[00:00:00 -697.593535] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #4, final logLikelihood: -688.738021
+
+[00:00:00] Tree #5, initial LogLikelihood: -946.313033
+
+[00:00:00 -946.313033] Initial branch length optimization
+[00:00:00 -695.420145] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #5, final logLikelihood: -687.553906
+
+[00:00:00] Tree #6, initial LogLikelihood: -945.633568
+
+[00:00:00 -945.633568] Initial branch length optimization
+[00:00:00 -693.947960] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #6, final logLikelihood: -686.112840
+
+[00:00:00] Tree #7, initial LogLikelihood: -947.519464
+
+[00:00:00 -947.519464] Initial branch length optimization
+[00:00:00 -693.948036] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #7, final logLikelihood: -686.112815
+
+[00:00:00] Tree #8, initial LogLikelihood: -946.951370
+
+[00:00:00 -946.951370] Initial branch length optimization
+[00:00:00 -693.947803] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #8, final logLikelihood: -686.112685
+
+[00:00:00] Tree #9, initial LogLikelihood: -950.242456
+
+[00:00:00 -950.242456] Initial branch length optimization
+[00:00:00 -697.593476] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #9, final logLikelihood: -688.738031
+
+[00:00:00] Tree #10, initial LogLikelihood: -950.473031
+
+[00:00:00 -950.473031] Initial branch length optimization
+[00:00:00 -697.593583] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #10, final logLikelihood: -688.737991
+
+[00:00:00] Tree #11, initial LogLikelihood: -934.234974
+
+[00:00:00 -934.234974] Initial branch length optimization
+[00:00:00 -674.849261] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #11, final logLikelihood: -668.362419
+
+[00:00:00] Tree #12, initial LogLikelihood: -934.227552
+
+[00:00:00 -934.227552] Initial branch length optimization
+[00:00:00 -674.849503] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #12, final logLikelihood: -668.362318
+
+[00:00:00] Tree #13, 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 #13, final logLikelihood: -668.362656
+
+[00:00:00] Tree #14, initial LogLikelihood: -934.237570
+
+[00:00:00 -934.237570] Initial branch length optimization
+[00:00:00 -674.849060] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #14, final logLikelihood: -668.362613
+
+[00:00:00] Tree #15, 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 #15, final logLikelihood: -668.362655
+
+[00:00:00] Tree #16, initial LogLikelihood: -934.225153
+
+[00:00:00 -934.225153] Initial branch length optimization
+[00:00:00 -674.849336] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #16, final logLikelihood: -668.362399
+
+[00:00:00] Tree #17, initial LogLikelihood: -934.237570
+
+[00:00:00 -934.237570] Initial branch length optimization
+[00:00:00 -674.849041] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #17, final logLikelihood: -668.362659
+
+[00:00:00] Tree #18, initial LogLikelihood: -934.239923
+
+[00:00:00 -934.239923] Initial branch length optimization
+[00:00:00 -674.849193] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #18, final logLikelihood: -668.362454
+
+[00:00:00] Tree #19, initial LogLikelihood: -934.225153
+
+[00:00:00 -934.225153] Initial branch length optimization
+[00:00:00 -674.849233] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #19, final logLikelihood: -668.362478
+
+[00:00:00] Tree #20, initial LogLikelihood: -934.232961
+
+[00:00:00 -934.232961] Initial branch length optimization
+[00:00:00 -674.849080] Model parameter optimization (eps = 10.000000)
+
+[00:00:00] Tree #20, final logLikelihood: -668.362545
+
+
+Optimized model parameters:
+
+   Partition 0: noname
+   Rate heterogeneity: GAMMA (4 cats, mean),  alpha: 99.862356 (ML),  weights&rates: (0.250000,0.875822) (0.250000,0.964713) (0.250000,1.029567) (0.250000,1.129897) 
+   Base frequencies (ML): 0.220521 0.272281 0.285569 0.221629 
+   Substitution rates (ML): 0.586335 0.197169 0.228769 0.865038 1.202222 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: 18-Aug-2025 15:31:54 / finished: 18-Aug-2025 15:31:55
+
+Elapsed time: 0.393 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": "1c668dab50f20e06bb2867db03b49631358b01d5", "tag": "v1.0.9", "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", "Node7", "Node8", "Node9", "Node10"], ["13de8675ec", "20a0129b57", "31e052ee14", "33aaa62e12", "4233d708fe", "91796617a0", "97366cf0d8", "Node1"], ["162cb1691f", "17f57acf2e", "73431a9b10", "73d6c6e558", "948b83fb4d", "bf50fa2017", "c8a90cc3d7", "Node1", "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", "Node7", "Node8", "Node9", "Node10"], "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, 0.017341040462427744, 0.005780346820809248, 0.005780346820809248, 0.005780346820809248, 0.005780346820809248, 0.005780346820809248], "n_mutations": [7, 6, 7, 4, 4, 0, 0, 8, 5, 4, 7, 6, 2, 2, 2, 2, 2], "input_seqs": ["NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGACGGCTTGGTCCAGCCTGGGGGGTGCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGTGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCTAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGCCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCGGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGGGCTGGGTCCGCCAGGCTCCAAGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTGAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTTTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTATCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGGGTATTACTGTGCGAGATCTATCGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCTTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGGAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTCGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGACACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCTGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACGTGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGTCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAAAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTAAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCCATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTTTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTAAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCTTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTTATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNNNNGAGGTGCAGCTGGTGGAGTCTGGGGAAGGCTTGGTCCAGCCTGGGGGGTCCCTGAGACTCTCCTGTGCAGCCTCTGGATTCACCGTCAGTAGCAACTACATGAGCTGGGTCCGCCAGGCTCCAGGGAAGGGGCTGGAGTGGGTCTCAGTTATTTATAGCGGTGGTAGCACATACTACGCAGACTCCGTGAAGGGCCGATTCACCATCTCCAGAGACAATTCCAAGAACACGCTGTATCTTCAAATGAACAGCCTGAGAGCTGAGGACACGGCTGTGTATTACTGTGCGAGATCTATAGCAGCAGCCGACTAATGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "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,(((648902c3e5:1e-06,8024ed1a22:1e-06)f47122f1f5:0.005797,(9c3cedb840:0.002895,ee25049b92:0.005817)Node3:0.011689)Node4:1e-06,(efdea248af:0.00873,(308de1d739:0.011636,(5fb484a8a6:0.014574,18f4019708:0.014595)Node10:1e-06)Node9:1e-06)Node8:1e-06)Node7:0.005798)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": -4, "Node4": 0, "Node7": 0, "Node8": 0, "Node9": 0, "Node10": 0}, "lbi": {"d024e5cab0": 0.2801608607322218, "648902c3e5": 0.11061271440567172, "8024ed1a22": 0.11061271440567172, "f47122f1f5": 0.11071240293974653, "9c3cedb840": 0.05913669618612469, "ee25049b92": 0.015977759013419548, "Node3": 0.27414446748919885, "Node4": 1.0011630202910315, "efdea248af": 0.038730228933123396, "308de1d739": 0.013839301395913987, "5fb484a8a6": 0.004908170003893425, "18f4019708": 0.004871978409914577, "Node10": 1.0011876474816883, "Node9": 1.001359279297515, "Node8": 1.0014115225350417, "Node7": 1.0013479791886484, "822801f8ab": 0.28032024071888234, "XnaiveX": 0.280282325848874}, "lbr": {"d024e5cab0": 0.0, "648902c3e5": 0.0, "8024ed1a22": 0.0, "f47122f1f5": 0.0004290045372580864, "9c3cedb840": 0.0, "ee25049b92": 0.0, "Node3": 1.4004016289350114, "Node4": 0.38165620553853996, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "18f4019708": 0.0, "Node10": 0.4131545254454056, "Node9": 0.7757247127900487, "Node8": 1.3637527792217161, "Node7": 5.80113879595273, "822801f8ab": 1.6241824423983948, "XnaiveX": 0.0}, "lbf": {"d024e5cab0": 0.0, "648902c3e5": 0.0, "8024ed1a22": 0.0, "f47122f1f5": 0.001818720111250772, "9c3cedb840": 0.0, "ee25049b92": 0.0, "Node3": 3.901666662881226, "Node4": 4.853695016411798, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "18f4019708": 0.0, "Node10": 5.13726678794429, "Node9": 7.67723343267168, "Node8": 10.139713404010699, "Node7": 14.989950389532412, "822801f8ab": 4.196476008980054, "XnaiveX": 4.195908469430096}, "aa-tree": "[&R] ((d024e5cab0:0.0,(((648902c3e5:0.0,8024ed1a22:0.0)f47122f1f5:0.017391304347826087,(9c3cedb840:0.0,ee25049b92:0.008695652173913044)Node3:0.034782608695652174)Node4:0.0,(efdea248af:0.017391304347826087,(308de1d739:0.02608695652173913,(5fb484a8a6:0.02608695652173913,18f4019708:0.02608695652173913)Node10:0.0)Node9:0.0)Node8:0.0)Node7:0.017391304347826087)822801f8ab:0.0)XnaiveX;\n", "aa-lbi": {"d024e5cab0": 0.17448865459090154, "648902c3e5": 0.0018930691410535422, "8024ed1a22": 0.0018930691410535422, "f47122f1f5": 0.0018930691410535422, "9c3cedb840": 0.16452242448111604, "ee25049b92": 1.945447201385015e-07, "Node3": 0.16452242448111604, "Node4": 1.0348146173410306, "efdea248af": 0.0018930691410535422, "308de1d739": 8.864737736556591e-05, "5fb484a8a6": 8.864737736556591e-05, "18f4019708": 8.864737736556591e-05, "Node10": 1.0348146173410306, "Node9": 1.0348146173410304, "Node8": 1.0348146173410304, "Node7": 1.0348146173410304, "822801f8ab": 0.17448865459090154, "XnaiveX": 0.17448865459090154}, "aa-lbr": {"d024e5cab0": 0.0, "648902c3e5": 0.0, "8024ed1a22": 0.0, "f47122f1f5": 0.0, "9c3cedb840": 0.0, "ee25049b92": 0.0, "Node3": 0.9531301271264627, "Node4": 0.39976116184195026, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "18f4019708": 0.0, "Node10": 0.4003185541453459, "Node9": 0.750746759955329, "Node8": 1.3334746177232655, "Node7": 5.995302664013174, "822801f8ab": 1.0110087688947065, "XnaiveX": 0.0}, "aa-lbf": {"d024e5cab0": 0.0, "648902c3e5": 0.0, "8024ed1a22": 0.0, "f47122f1f5": 0.0, "9c3cedb840": 0.0, "ee25049b92": 0.0, "Node3": 1.3383712061198858, "Node4": 2.805220890418995, "efdea248af": 0.0, "308de1d739": 0.0, "5fb484a8a6": 0.0, "18f4019708": 0.0, "Node10": 2.808014081136677, "Node9": 4.212021121705015, "Node8": 5.613090924798106, "Node7": 8.4183118152171, "822801f8ab": 1.4195449322866311, "XnaiveX": 1.4195449322866311}}}}, {"has_shm_indels": [false, false, true, true, false, 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", "Node1"], "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, 0.0], "n_mutations": [0, 1, 0, 0, 0, 0, 1, 0], "input_seqs": ["NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTAGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGGACCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTAAGCTGTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTTCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG"], "naive_seq": "NNNCAGGTTCAGCTGGTGCAGTCTGGAGCTGAGGTGAAGAAGCCTGGGGCCTCAGTGAAGGTCTCCTGCAAGGCTTCTGGTTACACCTTTACCAGCTATGGTATCAGCTGGGTGCGACAGGCCCCTGGACAAGGGCTTGAGTGGATGGGATGGATCAGCGCTTACAATGGTAACACAAACTATGCACAGAAGCTCCAGGGCAGAGTCACCATGACCACAGACACATCCACGAGCACAGCCTACATGGAGCTGAGGAGCCTGAGATCTGACGACACGGCCGTGTATTACTGTGCGAGAGACCCCTCGCAGTATAGCAGCAGCTTCCCTTTTGACTACTGGGGCCAGGGAACCCTGGTCACCGTCTCCTCAG", "duplicates": [[], [], [], [], [], [], [], []], "leader_seqs": ["", "", "", "", "", "", "", null], "c_gene_seqs": ["", "", "", "", "", "", "", null], "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, false], "in_frames": [true, true, true, false, true, true, true, true], "stops": [false, false, false, true, false, false, false, false], "loci": ["igh", "igh", "igh", "igh", "igh", "igh", "igh", null], "codon_positions": {"v": 288, "j": 336}, "tree-info": {"lb": {"tree": "[&R] (((97366cf0d8:0.00273,20a0129b57:0.00273)Node1:1e-06,31e052ee14:1e-06,13de8675ec:1e-06,(33aaa62e12:1e-06)91796617a0:1e-06)4233d708fe:1e-06)XnaiveX;\n", "cons-dist-aa": {"13de8675ec": 0, "20a0129b57": 0, "31e052ee14": 0, "33aaa62e12": 0, "4233d708fe": 0, "91796617a0": 0, "97366cf0d8": 0, "Node1": 0}, "lbi": {"97366cf0d8": 0.039957944651743384, "20a0129b57": 0.039957944651743384, "Node1": 0.21919224461125272, "31e052ee14": 0.21903028494799817, "13de8675ec": 0.21903028494799817, "33aaa62e12": 0.21888563594370225, "91796617a0": 0.2190303320637163, "4233d708fe": 0.2191750345980457, "XnaiveX": 0.21915764250378367}, "lbr": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "Node1": 1.2698143790030876, "31e052ee14": 0.0, "13de8675ec": 0.0, "33aaa62e12": 0.0, "91796617a0": 0.00016283931644033088, "4233d708fe": 1.2730717600677643, "XnaiveX": 0.0}, "lbf": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "Node1": 10.577195614616683, "31e052ee14": 0.0, "13de8675ec": 0.0, "33aaa62e12": 0.0, "91796617a0": 0.003077014099006546, "4233d708fe": 10.588666708369407, "XnaiveX": 10.587826640491166}, "aa-tree": "[&R] (((97366cf0d8:0.0,20a0129b57:0.0)Node1:0.0,31e052ee14:0.0,13de8675ec:0.0,(33aaa62e12:0.0)91796617a0:0.0)4233d708fe:0.0)XnaiveX;\n", "aa-lbi": {"97366cf0d8": -7.816792314480525e-06, "20a0129b57": -7.816792314480525e-06, "Node1": -7.816792314480525e-06, "31e052ee14": -7.816792314480525e-06, "13de8675ec": -7.816792314480525e-06, "33aaa62e12": -7.816792314480525e-06, "91796617a0": -7.816792314480525e-06, "4233d708fe": -7.816792314480525e-06, "XnaiveX": -7.816792314480525e-06}, "aa-lbr": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "Node1": 0.0, "31e052ee14": 0.0, "13de8675ec": 0.0, "33aaa62e12": 0.0, "91796617a0": 0.0, "4233d708fe": 0.0, "XnaiveX": 0.0}, "aa-lbf": {"97366cf0d8": 0.0, "20a0129b57": 0.0, "Node1": 0.0, "31e052ee14": 0.0, "13de8675ec": 0.0, "33aaa62e12": 0.0, "91796617a0": 0.0, "4233d708fe": 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", "Node1", "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, 0.002638522427440633, 0.010554089709762533, 0.005277044854881266, 0.005277044854881266, 0.002638522427440633], "n_mutations": [6, 5, 5, 4, 4, 3, 7, 1, 4, 2, 2, 1], "input_seqs": ["CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTAATACGAATACTTCCAGCACTGGGGCCAGGGCATCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGATTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGTACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAATTACAACCCCTCCCTCAGGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGACTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGAGTGCTTACTACTACGAAGACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGAGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCTCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAGGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAATCCTTCGGAGAGCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTAGTACAGTGGGAGCACCAACTACAACCCCTCCCTCAATAGTGGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCAGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTAGTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACACCCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGGCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG", "CAGGTGCAGCTGCAGGAGTCGGGCCCAGGACTGGTGAAGCCTTCGGAGACCCTGTCCCTCACCTGCACTGTCTCTGGTGGCTCCGTCAGCAGTGGTAGTTACTACTGGAGCTGGATCCGGCAGCCCCCAGGGAAGGGACTGGAGTGGATTGGGTATATCTATTACAGTGGGAGCACCAACTACAACCCCTCCCTCAAGAGTCGAGTCACCATATCAGTAGACACGTCCAAGAACCAGTTCTCCCTGAAGCTGAGCTCTGTGACCGCTGCGGACACGGCCGTGTATTACTGTGCGAGAGAGTATTACTATGATAGTAGTGGTTACTACTACGAATACTTCCAGCACTGGGGCCAGGGCACCCTGGTCACCGTCTCCTCAG"], "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, true, false, false, 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] ((c8a90cc3d7:0.016006,((((73431a9b10:0.005284)bf50fa2017:0.002644,(17f57acf2e:0.002632,162cb1691f:0.005305)Node3:0.005307)Node4:1e-06,948b83fb4d:0.005307)Node5:0.00264,73d6c6e558:0.007946)Node6:1e-06)Node1:0.002638)XnaiveX;\n", "cons-dist-aa": {"162cb1691f": -4, "17f57acf2e": -2, "73431a9b10": -1, "73d6c6e558": -4, "948b83fb4d": -1, "bf50fa2017": -1, "c8a90cc3d7": -6, "Node1": -1, "Node3": -2, "Node4": 0, "Node5": 0, "Node6": -1}, "lbi": {"c8a90cc3d7": 0.001056313333333558, "73431a9b10": 0.022614948731750913, "bf50fa2017": 0.3166073532320486, "17f57acf2e": 0.07657463186082135, "162cb1691f": 0.022384502502963897, "Node3": 0.31640963283801715, "Node4": 0.6201628266196499, "948b83fb4d": 0.06301460119113088, "Node5": 0.6201997498489367, "73d6c6e558": 0.02281019921398838, "Node6": 0.6273121481194683, "Node1": 0.6272700063647452, "XnaiveX": 0.33971513842717843}, "lbr": {"c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 0.4385921655966751, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node3": 1.1183570989926281, "Node4": 0.7812198562228089, "948b83fb4d": 0.0, "Node5": 1.67970338587788, "73d6c6e558": 0.0, "Node6": 1.3233152565839676, "Node1": 3.640156724290387, "XnaiveX": 0.0}, "lbf": {"c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 2.780124548468202, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node3": 4.812234014943255, "Node4": 6.482481167867299, "948b83fb4d": 0.0, "Node5": 9.2651322984344, "73d6c6e558": 0.0, "Node6": 8.494563444674098, "Node1": 11.699045596577553, "XnaiveX": 6.3360532811265395}, "aa-tree": "[&R] ((c8a90cc3d7:0.03968253968253968,((((73431a9b10:0.0)bf50fa2017:0.007936507936507936,(17f57acf2e:0.0,162cb1691f:0.015873015873015872)Node3:0.015873015873015872)Node4:0.0,948b83fb4d:0.007936507936507936)Node5:0.007936507936507936,73d6c6e558:0.023809523809523808)Node6:0.0)Node1:0.0)XnaiveX;\n", "aa-lbi": {"c8a90cc3d7": 1.0607562094404073e-07, "73431a9b10": 0.017443587693578136, "bf50fa2017": 0.017443587693578136, "17f57acf2e": 0.1727435913001429, "162cb1691f": 2.05140302349672e-06, "Node3": 0.1727435913001429, "Node4": 0.5169670843045983, "948b83fb4d": 0.017443587693578136, "Node5": 0.5169670843045983, "73d6c6e558": 4.3481144978049015e-05, "Node6": 0.5331232824754037, "Node1": 0.5331232824754037, "XnaiveX": 0.5331232824754037}, "aa-lbr": {"c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 0.0, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node3": 0.9927164071332475, "Node4": 0.9517978697603359, "948b83fb4d": 0.0, "Node5": 2.640392311585568, "73d6c6e558": 0.0, "Node6": 1.0469172980331307, "Node1": 3.0939269283638917, "XnaiveX": 0.0}, "aa-lbf": {"c8a90cc3d7": 0.0, "73431a9b10": 0.0, "bf50fa2017": 0.0, "17f57acf2e": 0.0, "162cb1691f": 0.0, "Node3": 1.8098285902400761, "Node4": 3.538886528840831, "948b83fb4d": 0.0, "Node5": 5.263528996917374, "73d6c6e558": 0.0, "Node6": 3.7986628012348613, "Node1": 5.61291712745328, "XnaiveX": 5.61291712745328}}}}]}