partis-bcr 1.0.5__py3-none-any.whl → 1.0.7__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (139) hide show
  1. bin/partis-test.py +4 -1
  2. packages/ham/bcrham +0 -0
  3. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/partis-test.py +4 -1
  4. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.7.dist-info}/METADATA +2 -1
  5. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.7.dist-info}/RECORD +98 -139
  6. python/utils.py +1 -1
  7. test/new-results/test/parameters/simu/hmm/all-mean-mute-freqs.csv +3 -3
  8. test/new-results/test/parameters/simu/hmm/all-mean-n-muted.csv +11 -11
  9. test/new-results/test/parameters/simu/hmm/all-probs.csv +3 -13
  10. test/new-results/test/parameters/simu/hmm/cluster_size.csv +1 -1
  11. test/new-results/test/parameters/simu/hmm/d-mean-mute-freqs.csv +6 -6
  12. test/new-results/test/parameters/simu/hmm/d-mean-n-muted.csv +3 -3
  13. test/new-results/test/parameters/simu/hmm/d_gene-d_3p_del-probs.csv +1 -6
  14. test/new-results/test/parameters/simu/hmm/d_gene-d_5p_del-probs.csv +2 -9
  15. test/new-results/test/parameters/simu/hmm/d_gene-probs.csv +1 -5
  16. test/new-results/test/parameters/simu/hmm/d_gene-vd_insertion-probs.csv +2 -10
  17. test/new-results/test/parameters/simu/hmm/dj_insertion_content.csv +4 -4
  18. test/new-results/test/parameters/simu/hmm/fv_insertion-probs.csv +2 -3
  19. test/new-results/test/parameters/simu/hmm/germline-sets/igh/extras.csv +0 -6
  20. test/new-results/test/parameters/simu/hmm/germline-sets/igh/ighd.fasta +0 -8
  21. test/new-results/test/parameters/simu/hmm/germline-sets/igh/ighj.fasta +0 -2
  22. test/new-results/test/parameters/simu/hmm/germline-sets/igh/ighv.fasta +0 -10
  23. test/new-results/test/parameters/simu/hmm/hmms/IGHD6-13_star_01.yaml +268 -267
  24. test/new-results/test/parameters/simu/hmm/hmms/IGHJ4_star_02.yaml +306 -306
  25. test/new-results/test/parameters/simu/hmm/hmms/IGHJ6_star_02.yaml +284 -284
  26. test/new-results/test/parameters/simu/hmm/hmms/IGHV3-66_star_02.yaml +1191 -1191
  27. test/new-results/test/parameters/simu/hmm/hmms/IGHV3-7_star_05.yaml +2 -2
  28. test/new-results/test/parameters/simu/hmm/j-mean-mute-freqs.csv +5 -5
  29. test/new-results/test/parameters/simu/hmm/j-mean-n-muted.csv +4 -4
  30. test/new-results/test/parameters/simu/hmm/j_gene-dj_insertion-probs.csv +2 -9
  31. test/new-results/test/parameters/simu/hmm/j_gene-j_3p_del-probs.csv +1 -2
  32. test/new-results/test/parameters/simu/hmm/j_gene-j_5p_del-probs.csv +2 -7
  33. test/new-results/test/parameters/simu/hmm/j_gene-probs.csv +1 -2
  34. test/new-results/test/parameters/simu/hmm/jf_insertion-probs.csv +1 -1
  35. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD6-13_star_01.csv +13 -16
  36. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHJ4_star_02.csv +40 -44
  37. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHJ6_star_02.csv +0 -2
  38. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV3-66_star_02.csv +291 -293
  39. test/new-results/test/parameters/simu/hmm/seq_content.csv +4 -4
  40. test/new-results/test/parameters/simu/hmm/v-mean-mute-freqs.csv +3 -3
  41. test/new-results/test/parameters/simu/hmm/v-mean-n-muted.csv +7 -7
  42. test/new-results/test/parameters/simu/hmm/v_gene-probs.csv +1 -6
  43. test/new-results/test/parameters/simu/hmm/v_gene-v_3p_del-probs.csv +1 -7
  44. test/new-results/test/parameters/simu/hmm/v_gene-v_5p_del-probs.csv +1 -6
  45. test/new-results/test/parameters/simu/hmm/vd_insertion_content.csv +4 -4
  46. test/new-results/test/parameters/simu/sw/all-mean-mute-freqs.csv +3 -3
  47. test/new-results/test/parameters/simu/sw/all-mean-n-muted.csv +8 -8
  48. test/new-results/test/parameters/simu/sw/all-probs.csv +1 -9
  49. test/new-results/test/parameters/simu/sw/cluster_size.csv +1 -1
  50. test/new-results/test/parameters/simu/sw/d-mean-mute-freqs.csv +5 -5
  51. test/new-results/test/parameters/simu/sw/d-mean-n-muted.csv +3 -3
  52. test/new-results/test/parameters/simu/sw/d_gene-d_3p_del-probs.csv +1 -7
  53. test/new-results/test/parameters/simu/sw/d_gene-d_5p_del-probs.csv +1 -7
  54. test/new-results/test/parameters/simu/sw/d_gene-probs.csv +1 -5
  55. test/new-results/test/parameters/simu/sw/d_gene-vd_insertion-probs.csv +1 -8
  56. test/new-results/test/parameters/simu/sw/dj_insertion_content.csv +4 -4
  57. test/new-results/test/parameters/simu/sw/fv_insertion-probs.csv +1 -1
  58. test/new-results/test/parameters/simu/sw/germline-sets/igh/extras.csv +0 -6
  59. test/new-results/test/parameters/simu/sw/germline-sets/igh/ighd.fasta +0 -8
  60. test/new-results/test/parameters/simu/sw/germline-sets/igh/ighj.fasta +0 -2
  61. test/new-results/test/parameters/simu/sw/germline-sets/igh/ighv.fasta +0 -10
  62. test/new-results/test/parameters/simu/sw/hmms/IGHD6-13_star_01.yaml +268 -267
  63. test/new-results/test/parameters/simu/sw/hmms/IGHJ4_star_02.yaml +306 -306
  64. test/new-results/test/parameters/simu/sw/hmms/IGHJ6_star_02.yaml +22 -22
  65. test/new-results/test/parameters/simu/sw/hmms/IGHV3-66_star_02.yaml +1191 -1191
  66. test/new-results/test/parameters/simu/sw/hmms/IGHV3-7_star_05.yaml +2 -2
  67. test/new-results/test/parameters/simu/sw/j-mean-mute-freqs.csv +4 -4
  68. test/new-results/test/parameters/simu/sw/j-mean-n-muted.csv +3 -3
  69. test/new-results/test/parameters/simu/sw/j_gene-dj_insertion-probs.csv +1 -7
  70. test/new-results/test/parameters/simu/sw/j_gene-j_3p_del-probs.csv +1 -2
  71. test/new-results/test/parameters/simu/sw/j_gene-j_5p_del-probs.csv +1 -7
  72. test/new-results/test/parameters/simu/sw/j_gene-probs.csv +1 -2
  73. test/new-results/test/parameters/simu/sw/jf_insertion-probs.csv +1 -1
  74. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD6-13_star_01.csv +13 -16
  75. test/new-results/test/parameters/simu/sw/mute-freqs/IGHJ4_star_02.csv +40 -48
  76. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV3-66_star_02.csv +291 -293
  77. test/new-results/test/parameters/simu/sw/seq_content.csv +4 -4
  78. test/new-results/test/parameters/simu/sw/v-mean-mute-freqs.csv +3 -3
  79. test/new-results/test/parameters/simu/sw/v-mean-n-muted.csv +7 -7
  80. test/new-results/test/parameters/simu/sw/v_gene-probs.csv +1 -6
  81. test/new-results/test/parameters/simu/sw/v_gene-v_3p_del-probs.csv +1 -7
  82. test/new-results/test/parameters/simu/sw/v_gene-v_5p_del-probs.csv +1 -6
  83. test/new-results/test/parameters/simu/sw/vd_insertion_content.csv +4 -4
  84. test/new-results/test/parameters/simu/sw-cache.yaml +1 -1
  85. test/new-results/test.log +24 -258
  86. test/test.py +4 -1
  87. bin/partis-pip +0 -116
  88. test/new-results/test/parameters/simu/hmm/hmms/IGHD1-20_star_01.yaml +0 -449
  89. test/new-results/test/parameters/simu/hmm/hmms/IGHD3-16_star_02.yaml +0 -870
  90. test/new-results/test/parameters/simu/hmm/hmms/IGHD3-22_star_01.yaml +0 -744
  91. test/new-results/test/parameters/simu/hmm/hmms/IGHD6-19_star_01.yaml +0 -534
  92. test/new-results/test/parameters/simu/hmm/hmms/IGHJ1_star_01.yaml +0 -986
  93. test/new-results/test/parameters/simu/hmm/hmms/IGHV1-18_star_01.yaml +0 -4484
  94. test/new-results/test/parameters/simu/hmm/hmms/IGHV3-23_star_01.yaml +0 -4484
  95. test/new-results/test/parameters/simu/hmm/hmms/IGHV4-4_star_09.yaml +0 -4438
  96. test/new-results/test/parameters/simu/hmm/hmms/IGHV4-61_star_01.yaml +0 -4529
  97. test/new-results/test/parameters/simu/hmm/hmms/IGHV5-51_star_01.yaml +0 -4484
  98. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD1-20_star_01.csv +0 -9
  99. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD3-16_star_02.csv +0 -30
  100. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD3-22_star_01.csv +0 -32
  101. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHD6-19_star_01.csv +0 -22
  102. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHJ1_star_01.csv +0 -50
  103. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV1-18_star_01.csv +0 -297
  104. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV3-23_star_01.csv +0 -297
  105. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV4-4_star_09.csv +0 -291
  106. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV4-61_star_01.csv +0 -300
  107. test/new-results/test/parameters/simu/hmm/mute-freqs/IGHV5-51_star_01.csv +0 -296
  108. test/new-results/test/parameters/simu/sw/hmms/IGHD1-20_star_01.yaml +0 -449
  109. test/new-results/test/parameters/simu/sw/hmms/IGHD3-16_star_02.yaml +0 -870
  110. test/new-results/test/parameters/simu/sw/hmms/IGHD3-22_star_01.yaml +0 -744
  111. test/new-results/test/parameters/simu/sw/hmms/IGHD6-19_star_01.yaml +0 -534
  112. test/new-results/test/parameters/simu/sw/hmms/IGHJ1_star_01.yaml +0 -986
  113. test/new-results/test/parameters/simu/sw/hmms/IGHV1-18_star_01.yaml +0 -4484
  114. test/new-results/test/parameters/simu/sw/hmms/IGHV3-23_star_01.yaml +0 -4484
  115. test/new-results/test/parameters/simu/sw/hmms/IGHV4-4_star_09.yaml +0 -4438
  116. test/new-results/test/parameters/simu/sw/hmms/IGHV4-61_star_01.yaml +0 -4529
  117. test/new-results/test/parameters/simu/sw/hmms/IGHV5-51_star_01.yaml +0 -4484
  118. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD1-20_star_01.csv +0 -9
  119. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD3-16_star_02.csv +0 -30
  120. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD3-22_star_01.csv +0 -32
  121. test/new-results/test/parameters/simu/sw/mute-freqs/IGHD6-19_star_01.csv +0 -20
  122. test/new-results/test/parameters/simu/sw/mute-freqs/IGHJ1_star_01.csv +0 -50
  123. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV1-18_star_01.csv +0 -297
  124. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV3-23_star_01.csv +0 -297
  125. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV4-4_star_09.csv +0 -291
  126. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV4-61_star_01.csv +0 -300
  127. test/new-results/test/parameters/simu/sw/mute-freqs/IGHV5-51_star_01.csv +0 -296
  128. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/cf-alleles.py +0 -0
  129. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/cf-germlines.py +0 -0
  130. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/compare-plotdirs.py +0 -0
  131. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/extract-pairing-info.py +0 -0
  132. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/gctree-run.py +0 -0
  133. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/get-naive-probabilities.py +0 -0
  134. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/parse-output.py +0 -0
  135. {partis_bcr-1.0.5.data → partis_bcr-1.0.7.data}/scripts/split-loci.py +0 -0
  136. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.7.dist-info}/WHEEL +0 -0
  137. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.7.dist-info}/entry_points.txt +0 -0
  138. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.7.dist-info}/licenses/COPYING +0 -0
  139. {partis_bcr-1.0.5.dist-info → partis_bcr-1.0.7.dist-info}/top_level.txt +0 -0
test/new-results/test/parameters/simu/sw/hmms/IGHJ4_star_02.yaml CHANGED
@@ -1,8 +1,8 @@
1
1
  !!python/object:python.hmmwriter.HMM
2
2
  extras:
3
- gene_prob: 0.6944444444444444
4
- overall_mute_freq: 0.012222222222222223
5
- per_gene_mute_freq: 0.062318616609175516
3
+ gene_prob: 0.7
4
+ overall_mute_freq: 0.019000000000000003
5
+ per_gene_mute_freq: 0.11148736688223958
6
6
  name: IGHJ4_star_02
7
7
  states:
8
8
  - !!python/object:python.hmmwriter.State
@@ -10,32 +10,32 @@ states:
10
10
  extras: {}
11
11
  name: init
12
12
  transitions:
13
- IGHJ4_star_02_0: 0.000334260598697892
14
- IGHJ4_star_02_1: 0.000417825748372365
15
- IGHJ4_star_02_10: 0.003259040837304447
16
- IGHJ4_star_02_11: 0.0027158673644203726
17
- IGHJ4_star_02_12: 0.002172693891536298
18
- IGHJ4_star_02_13: 0.0016295204186522235
19
- IGHJ4_star_02_14: 0.001086346945768149
20
- IGHJ4_star_02_2: 0.000501390898046838
21
- IGHJ4_star_02_3: 0.000584956047721311
22
- IGHJ4_star_02_4: 0.000668521197395784
23
- IGHJ4_star_02_5: 0.0023398241908852437
24
- IGHJ4_star_02_6: 0.001504172694140514
25
- IGHJ4_star_02_7: 0.000668521197395784
26
- IGHJ4_star_02_8: 0.004345387783072596
27
- IGHJ4_star_02_9: 0.0038022143101885215
28
- insert_left_A: 0.1371787966023101
29
- insert_left_C: 0.3909595703165838
30
- insert_left_G: 0.15775561609265662
31
- insert_left_T: 0.2880754728648512
13
+ IGHJ4_star_02_0: 0.003236245954692557
14
+ IGHJ4_star_02_1: 0.003236245954692557
15
+ IGHJ4_star_02_10: 0.01699029126213592
16
+ IGHJ4_star_02_11: 0.014158576051779935
17
+ IGHJ4_star_02_12: 0.011326860841423949
18
+ IGHJ4_star_02_13: 0.00849514563106796
19
+ IGHJ4_star_02_14: 0.0056634304207119745
20
+ IGHJ4_star_02_2: 0.003236245954692557
21
+ IGHJ4_star_02_3: 0.003236245954692557
22
+ IGHJ4_star_02_4: 0.003236245954692557
23
+ IGHJ4_star_02_5: 0.003236245954692557
24
+ IGHJ4_star_02_6: 0.003236245954692557
25
+ IGHJ4_star_02_7: 0.003236245954692557
26
+ IGHJ4_star_02_8: 0.022653721682847898
27
+ IGHJ4_star_02_9: 0.01982200647249191
28
+ insert_left_A: 0.150390625
29
+ insert_left_C: 0.21875
30
+ insert_left_G: 0.21875
31
+ insert_left_T: 0.287109375
32
32
  - !!python/object:python.hmmwriter.State
33
33
  emissions:
34
34
  probs:
35
- A: 0.9376813833908245
36
- C: 0.020772872203058505
37
- G: 0.020772872203058505
38
- T: 0.020772872203058505
35
+ A: 0.8885126331177604
36
+ C: 0.037162455627413195
37
+ G: 0.037162455627413195
38
+ T: 0.037162455627413195
39
39
  track: nukes
40
40
  extras:
41
41
  ambiguous_char: N
@@ -43,32 +43,32 @@ states:
43
43
  germline: A
44
44
  name: insert_left_A
45
45
  transitions:
46
- IGHJ4_star_02_0: 0.0042803638309256275
47
- IGHJ4_star_02_1: 0.005350454788657034
48
- IGHJ4_star_02_10: 0.041733547351524874
49
- IGHJ4_star_02_11: 0.03477795612627073
50
- IGHJ4_star_02_12: 0.027822364901016583
51
- IGHJ4_star_02_13: 0.020866773675762437
52
- IGHJ4_star_02_14: 0.013911182450508291
53
- IGHJ4_star_02_2: 0.006420545746388441
54
- IGHJ4_star_02_3: 0.007490636704119849
55
- IGHJ4_star_02_4: 0.008560727661851255
56
- IGHJ4_star_02_5: 0.029962546816479394
57
- IGHJ4_star_02_6: 0.019261637239165325
58
- IGHJ4_star_02_7: 0.008560727661851255
59
- IGHJ4_star_02_8: 0.055644729802033166
60
- IGHJ4_star_02_9: 0.04868913857677901
61
- insert_left_A: 0.09389671361502348
62
- insert_left_C: 0.26760563380281693
63
- insert_left_G: 0.10798122065727701
64
- insert_left_T: 0.1971830985915493
46
+ IGHJ4_star_02_0: 0.003236245954692557
47
+ IGHJ4_star_02_1: 0.003236245954692557
48
+ IGHJ4_star_02_10: 0.01699029126213592
49
+ IGHJ4_star_02_11: 0.014158576051779935
50
+ IGHJ4_star_02_12: 0.011326860841423949
51
+ IGHJ4_star_02_13: 0.00849514563106796
52
+ IGHJ4_star_02_14: 0.0056634304207119745
53
+ IGHJ4_star_02_2: 0.003236245954692557
54
+ IGHJ4_star_02_3: 0.003236245954692557
55
+ IGHJ4_star_02_4: 0.003236245954692557
56
+ IGHJ4_star_02_5: 0.003236245954692557
57
+ IGHJ4_star_02_6: 0.003236245954692557
58
+ IGHJ4_star_02_7: 0.003236245954692557
59
+ IGHJ4_star_02_8: 0.022653721682847898
60
+ IGHJ4_star_02_9: 0.01982200647249191
61
+ insert_left_A: 0.150390625
62
+ insert_left_C: 0.21875
63
+ insert_left_G: 0.21875
64
+ insert_left_T: 0.287109375
65
65
  - !!python/object:python.hmmwriter.State
66
66
  emissions:
67
67
  probs:
68
- A: 0.020772872203058505
69
- C: 0.9376813833908245
70
- G: 0.020772872203058505
71
- T: 0.020772872203058505
68
+ A: 0.037162455627413195
69
+ C: 0.8885126331177604
70
+ G: 0.037162455627413195
71
+ T: 0.037162455627413195
72
72
  track: nukes
73
73
  extras:
74
74
  ambiguous_char: N
@@ -76,32 +76,32 @@ states:
76
76
  germline: C
77
77
  name: insert_left_C
78
78
  transitions:
79
- IGHJ4_star_02_0: 0.0042803638309256275
80
- IGHJ4_star_02_1: 0.005350454788657034
81
- IGHJ4_star_02_10: 0.041733547351524874
82
- IGHJ4_star_02_11: 0.03477795612627073
83
- IGHJ4_star_02_12: 0.027822364901016583
84
- IGHJ4_star_02_13: 0.020866773675762437
85
- IGHJ4_star_02_14: 0.013911182450508291
86
- IGHJ4_star_02_2: 0.006420545746388441
87
- IGHJ4_star_02_3: 0.007490636704119849
88
- IGHJ4_star_02_4: 0.008560727661851255
89
- IGHJ4_star_02_5: 0.029962546816479394
90
- IGHJ4_star_02_6: 0.019261637239165325
91
- IGHJ4_star_02_7: 0.008560727661851255
92
- IGHJ4_star_02_8: 0.055644729802033166
93
- IGHJ4_star_02_9: 0.04868913857677901
94
- insert_left_A: 0.09389671361502348
95
- insert_left_C: 0.26760563380281693
96
- insert_left_G: 0.10798122065727701
97
- insert_left_T: 0.1971830985915493
79
+ IGHJ4_star_02_0: 0.003236245954692557
80
+ IGHJ4_star_02_1: 0.003236245954692557
81
+ IGHJ4_star_02_10: 0.01699029126213592
82
+ IGHJ4_star_02_11: 0.014158576051779935
83
+ IGHJ4_star_02_12: 0.011326860841423949
84
+ IGHJ4_star_02_13: 0.00849514563106796
85
+ IGHJ4_star_02_14: 0.0056634304207119745
86
+ IGHJ4_star_02_2: 0.003236245954692557
87
+ IGHJ4_star_02_3: 0.003236245954692557
88
+ IGHJ4_star_02_4: 0.003236245954692557
89
+ IGHJ4_star_02_5: 0.003236245954692557
90
+ IGHJ4_star_02_6: 0.003236245954692557
91
+ IGHJ4_star_02_7: 0.003236245954692557
92
+ IGHJ4_star_02_8: 0.022653721682847898
93
+ IGHJ4_star_02_9: 0.01982200647249191
94
+ insert_left_A: 0.150390625
95
+ insert_left_C: 0.21875
96
+ insert_left_G: 0.21875
97
+ insert_left_T: 0.287109375
98
98
  - !!python/object:python.hmmwriter.State
99
99
  emissions:
100
100
  probs:
101
- A: 0.020772872203058505
102
- C: 0.020772872203058505
103
- G: 0.9376813833908245
104
- T: 0.020772872203058505
101
+ A: 0.037162455627413195
102
+ C: 0.037162455627413195
103
+ G: 0.8885126331177604
104
+ T: 0.037162455627413195
105
105
  track: nukes
106
106
  extras:
107
107
  ambiguous_char: N
@@ -109,32 +109,32 @@ states:
109
109
  germline: G
110
110
  name: insert_left_G
111
111
  transitions:
112
- IGHJ4_star_02_0: 0.0042803638309256275
113
- IGHJ4_star_02_1: 0.005350454788657034
114
- IGHJ4_star_02_10: 0.041733547351524874
115
- IGHJ4_star_02_11: 0.03477795612627073
116
- IGHJ4_star_02_12: 0.027822364901016583
117
- IGHJ4_star_02_13: 0.020866773675762437
118
- IGHJ4_star_02_14: 0.013911182450508291
119
- IGHJ4_star_02_2: 0.006420545746388441
120
- IGHJ4_star_02_3: 0.007490636704119849
121
- IGHJ4_star_02_4: 0.008560727661851255
122
- IGHJ4_star_02_5: 0.029962546816479394
123
- IGHJ4_star_02_6: 0.019261637239165325
124
- IGHJ4_star_02_7: 0.008560727661851255
125
- IGHJ4_star_02_8: 0.055644729802033166
126
- IGHJ4_star_02_9: 0.04868913857677901
127
- insert_left_A: 0.09389671361502348
128
- insert_left_C: 0.26760563380281693
129
- insert_left_G: 0.10798122065727701
130
- insert_left_T: 0.1971830985915493
112
+ IGHJ4_star_02_0: 0.003236245954692557
113
+ IGHJ4_star_02_1: 0.003236245954692557
114
+ IGHJ4_star_02_10: 0.01699029126213592
115
+ IGHJ4_star_02_11: 0.014158576051779935
116
+ IGHJ4_star_02_12: 0.011326860841423949
117
+ IGHJ4_star_02_13: 0.00849514563106796
118
+ IGHJ4_star_02_14: 0.0056634304207119745
119
+ IGHJ4_star_02_2: 0.003236245954692557
120
+ IGHJ4_star_02_3: 0.003236245954692557
121
+ IGHJ4_star_02_4: 0.003236245954692557
122
+ IGHJ4_star_02_5: 0.003236245954692557
123
+ IGHJ4_star_02_6: 0.003236245954692557
124
+ IGHJ4_star_02_7: 0.003236245954692557
125
+ IGHJ4_star_02_8: 0.022653721682847898
126
+ IGHJ4_star_02_9: 0.01982200647249191
127
+ insert_left_A: 0.150390625
128
+ insert_left_C: 0.21875
129
+ insert_left_G: 0.21875
130
+ insert_left_T: 0.287109375
131
131
  - !!python/object:python.hmmwriter.State
132
132
  emissions:
133
133
  probs:
134
- A: 0.020772872203058505
135
- C: 0.020772872203058505
136
- G: 0.020772872203058505
137
- T: 0.9376813833908245
134
+ A: 0.037162455627413195
135
+ C: 0.037162455627413195
136
+ G: 0.037162455627413195
137
+ T: 0.8885126331177604
138
138
  track: nukes
139
139
  extras:
140
140
  ambiguous_char: N
@@ -142,32 +142,32 @@ states:
142
142
  germline: T
143
143
  name: insert_left_T
144
144
  transitions:
145
- IGHJ4_star_02_0: 0.0042803638309256275
146
- IGHJ4_star_02_1: 0.005350454788657034
147
- IGHJ4_star_02_10: 0.041733547351524874
148
- IGHJ4_star_02_11: 0.03477795612627073
149
- IGHJ4_star_02_12: 0.027822364901016583
150
- IGHJ4_star_02_13: 0.020866773675762437
151
- IGHJ4_star_02_14: 0.013911182450508291
152
- IGHJ4_star_02_2: 0.006420545746388441
153
- IGHJ4_star_02_3: 0.007490636704119849
154
- IGHJ4_star_02_4: 0.008560727661851255
155
- IGHJ4_star_02_5: 0.029962546816479394
156
- IGHJ4_star_02_6: 0.019261637239165325
157
- IGHJ4_star_02_7: 0.008560727661851255
158
- IGHJ4_star_02_8: 0.055644729802033166
159
- IGHJ4_star_02_9: 0.04868913857677901
160
- insert_left_A: 0.09389671361502348
161
- insert_left_C: 0.26760563380281693
162
- insert_left_G: 0.10798122065727701
163
- insert_left_T: 0.1971830985915493
145
+ IGHJ4_star_02_0: 0.003236245954692557
146
+ IGHJ4_star_02_1: 0.003236245954692557
147
+ IGHJ4_star_02_10: 0.01699029126213592
148
+ IGHJ4_star_02_11: 0.014158576051779935
149
+ IGHJ4_star_02_12: 0.011326860841423949
150
+ IGHJ4_star_02_13: 0.00849514563106796
151
+ IGHJ4_star_02_14: 0.0056634304207119745
152
+ IGHJ4_star_02_2: 0.003236245954692557
153
+ IGHJ4_star_02_3: 0.003236245954692557
154
+ IGHJ4_star_02_4: 0.003236245954692557
155
+ IGHJ4_star_02_5: 0.003236245954692557
156
+ IGHJ4_star_02_6: 0.003236245954692557
157
+ IGHJ4_star_02_7: 0.003236245954692557
158
+ IGHJ4_star_02_8: 0.022653721682847898
159
+ IGHJ4_star_02_9: 0.01982200647249191
160
+ insert_left_A: 0.150390625
161
+ insert_left_C: 0.21875
162
+ insert_left_G: 0.21875
163
+ insert_left_T: 0.287109375
164
164
  - !!python/object:python.hmmwriter.State
165
165
  emissions:
166
166
  probs:
167
- A: 0.9376813833908245
168
- C: 0.020772872203058505
169
- G: 0.020772872203058505
170
- T: 0.020772872203058505
167
+ A: 0.8885126331177604
168
+ C: 0.03716245562741319
169
+ G: 0.03716245562741319
170
+ T: 0.03716245562741319
171
171
  track: nukes
172
172
  extras:
173
173
  ambiguous_char: N
@@ -179,10 +179,10 @@ states:
179
179
  - !!python/object:python.hmmwriter.State
180
180
  emissions:
181
181
  probs:
182
- A: 0.021527821359035165
183
- C: 0.9354165359228945
184
- G: 0.021527821359035165
185
- T: 0.021527821359035165
182
+ A: 0.0369709995127092
183
+ C: 0.8890870014618724
184
+ G: 0.0369709995127092
185
+ T: 0.0369709995127092
186
186
  track: nukes
187
187
  extras:
188
188
  ambiguous_char: N
@@ -194,10 +194,10 @@ states:
194
194
  - !!python/object:python.hmmwriter.State
195
195
  emissions:
196
196
  probs:
197
- A: 0.022282770515011822
198
- C: 0.022282770515011822
199
- G: 0.022282770515011822
200
- T: 0.9331516884549645
197
+ A: 0.0367795433980052
198
+ C: 0.0367795433980052
199
+ G: 0.0367795433980052
200
+ T: 0.8896613698059844
201
201
  track: nukes
202
202
  extras:
203
203
  ambiguous_char: N
@@ -209,10 +209,10 @@ states:
209
209
  - !!python/object:python.hmmwriter.State
210
210
  emissions:
211
211
  probs:
212
- A: 0.9301541758822008
213
- C: 0.02328194137259973
214
- G: 0.02328194137259973
215
- T: 0.02328194137259973
212
+ A: 0.8902357381500964
213
+ C: 0.036588087283301214
214
+ G: 0.036588087283301214
215
+ T: 0.036588087283301214
216
216
  track: nukes
217
217
  extras:
218
218
  ambiguous_char: N
@@ -224,10 +224,10 @@ states:
224
224
  - !!python/object:python.hmmwriter.State
225
225
  emissions:
226
226
  probs:
227
- A: 0.025618297762446802
228
- C: 0.9231451067126596
229
- G: 0.025618297762446802
230
- T: 0.025618297762446802
227
+ A: 0.03639663116859722
228
+ C: 0.8908101064942083
229
+ G: 0.03639663116859722
230
+ T: 0.03639663116859722
231
231
  track: nukes
232
232
  extras:
233
233
  ambiguous_char: N
@@ -239,10 +239,10 @@ states:
239
239
  - !!python/object:python.hmmwriter.State
240
240
  emissions:
241
241
  probs:
242
- A: 0.02387872470360638
243
- C: 0.02387872470360638
244
- G: 0.02387872470360638
245
- T: 0.9283638258891809
242
+ A: 0.03620517505389323
243
+ C: 0.03620517505389323
244
+ G: 0.03620517505389323
245
+ T: 0.8913844748383203
246
246
  track: nukes
247
247
  extras:
248
248
  ambiguous_char: N
@@ -254,10 +254,10 @@ states:
254
254
  - !!python/object:python.hmmwriter.State
255
255
  emissions:
256
256
  probs:
257
- A: 0.024499895203715955
258
- C: 0.024499895203715955
259
- G: 0.024499895203715955
260
- T: 0.9265003143888522
257
+ A: 0.036013718939189227
258
+ C: 0.036013718939189227
259
+ G: 0.036013718939189227
260
+ T: 0.8919588431824323
261
261
  track: nukes
262
262
  extras:
263
263
  ambiguous_char: N
@@ -269,10 +269,10 @@ states:
269
269
  - !!python/object:python.hmmwriter.State
270
270
  emissions:
271
271
  probs:
272
- A: 0.024171718706024695
273
- C: 0.024171718706024695
274
- G: 0.024171718706024695
275
- T: 0.9274848438819259
272
+ A: 0.03582226282448524
273
+ C: 0.03582226282448524
274
+ G: 0.03582226282448524
275
+ T: 0.8925332115265443
276
276
  track: nukes
277
277
  extras:
278
278
  ambiguous_char: N
@@ -284,10 +284,10 @@ states:
284
284
  - !!python/object:python.hmmwriter.State
285
285
  emissions:
286
286
  probs:
287
- A: 0.018525612693435105
288
- C: 0.018525612693435105
289
- G: 0.9444231619196947
290
- T: 0.018525612693435105
287
+ A: 0.03699707934069791
288
+ C: 0.03699707934069791
289
+ G: 0.8890087619779062
290
+ T: 0.03699707934069791
291
291
  track: nukes
292
292
  extras:
293
293
  ambiguous_char: N
@@ -299,10 +299,10 @@ states:
299
299
  - !!python/object:python.hmmwriter.State
300
300
  emissions:
301
301
  probs:
302
- A: 0.9477247608649535
303
- C: 0.017425079711682175
304
- G: 0.017425079711682175
305
- T: 0.017425079711682175
302
+ A: 0.8890707780854245
303
+ C: 0.0369764073048585
304
+ G: 0.0369764073048585
305
+ T: 0.0369764073048585
306
306
  track: nukes
307
307
  extras:
308
308
  ambiguous_char: N
@@ -314,10 +314,10 @@ states:
314
314
  - !!python/object:python.hmmwriter.State
315
315
  emissions:
316
316
  probs:
317
- A: 0.01796379781602925
318
- C: 0.9461086065519122
319
- G: 0.01796379781602925
320
- T: 0.01796379781602925
317
+ A: 0.03695573526901909
318
+ C: 0.8891327941929428
319
+ G: 0.03695573526901909
320
+ T: 0.03695573526901909
321
321
  track: nukes
322
322
  extras:
323
323
  ambiguous_char: N
@@ -329,10 +329,10 @@ states:
329
329
  - !!python/object:python.hmmwriter.State
330
330
  emissions:
331
331
  probs:
332
- A: 0.017682890377326323
333
- C: 0.017682890377326323
334
- G: 0.017682890377326323
335
- T: 0.946951328868021
332
+ A: 0.03693506323317968
333
+ C: 0.03693506323317968
334
+ G: 0.03693506323317968
335
+ T: 0.889194810300461
336
336
  track: nukes
337
337
  extras:
338
338
  ambiguous_char: N
@@ -344,10 +344,10 @@ states:
344
344
  - !!python/object:python.hmmwriter.State
345
345
  emissions:
346
346
  probs:
347
- A: 0.9270725533563298
348
- C: 0.018231861660917552
349
- G: 0.018231861660917552
350
- T: 0.036463723321835104
347
+ A: 0.8564050532471041
348
+ C: 0.03589873668822395
349
+ G: 0.03589873668822395
350
+ T: 0.0717974733764479
351
351
  track: nukes
352
352
  extras:
353
353
  ambiguous_char: N
@@ -359,10 +359,10 @@ states:
359
359
  - !!python/object:python.hmmwriter.State
360
360
  emissions:
361
361
  probs:
362
- A: 0.20398214930171843
363
- C: 0.7506884841867886
364
- G: 0.02266468325574649
365
- T: 0.02266468325574649
362
+ A: 0.1251410054290541
363
+ C: 0.8391044215912161
364
+ G: 0.01787728648986487
365
+ T: 0.01787728648986487
366
366
  track: nukes
367
367
  extras:
368
368
  ambiguous_char: N
@@ -374,10 +374,10 @@ states:
374
374
  - !!python/object:python.hmmwriter.State
375
375
  emissions:
376
376
  probs:
377
- A: 0.01684016806121755
378
- C: 0.01684016806121755
379
- G: 0.01684016806121755
380
- T: 0.9494794958163474
377
+ A: 0.03687304712566145
378
+ C: 0.03687304712566145
379
+ G: 0.03687304712566145
380
+ T: 0.8893808586230156
381
381
  track: nukes
382
382
  extras:
383
383
  ambiguous_char: N
@@ -389,10 +389,10 @@ states:
389
389
  - !!python/object:python.hmmwriter.State
390
390
  emissions:
391
391
  probs:
392
- A: 0.016559260622514626
393
- C: 0.016559260622514626
394
- G: 0.9503222181324561
395
- T: 0.016559260622514626
392
+ A: 0.03685237508982204
393
+ C: 0.03685237508982204
394
+ G: 0.8894428747305339
395
+ T: 0.03685237508982204
396
396
  track: nukes
397
397
  extras:
398
398
  ambiguous_char: N
@@ -404,10 +404,10 @@ states:
404
404
  - !!python/object:python.hmmwriter.State
405
405
  emissions:
406
406
  probs:
407
- A: 0.016278353183811697
408
- C: 0.016278353183811697
409
- G: 0.9511649404485649
410
- T: 0.016278353183811697
407
+ A: 0.03683170305398263
408
+ C: 0.03683170305398263
409
+ G: 0.8895048908380521
410
+ T: 0.03683170305398263
411
411
  track: nukes
412
412
  extras:
413
413
  ambiguous_char: N
@@ -419,10 +419,10 @@ states:
419
419
  - !!python/object:python.hmmwriter.State
420
420
  emissions:
421
421
  probs:
422
- A: 0.015997445745108772
423
- C: 0.015997445745108772
424
- G: 0.9520076627646736
425
- T: 0.015997445745108772
422
+ A: 0.036811031018143224
423
+ C: 0.036811031018143224
424
+ G: 0.8895669069455703
425
+ T: 0.036811031018143224
426
426
  track: nukes
427
427
  extras:
428
428
  ambiguous_char: N
@@ -434,10 +434,10 @@ states:
434
434
  - !!python/object:python.hmmwriter.State
435
435
  emissions:
436
436
  probs:
437
- A: 0.01407728722030585
438
- C: 0.01407728722030585
439
- G: 0.9577681383390825
440
- T: 0.01407728722030585
437
+ A: 0.038216245562741315
438
+ C: 0.038216245562741315
439
+ G: 0.885351263311776
440
+ T: 0.038216245562741315
441
441
  track: nukes
442
442
  extras:
443
443
  ambiguous_char: N
@@ -449,10 +449,10 @@ states:
449
449
  - !!python/object:python.hmmwriter.State
450
450
  emissions:
451
451
  probs:
452
- A: 0.015435630867702924
453
- C: 0.9536931073968913
454
- G: 0.015435630867702924
455
- T: 0.015435630867702924
452
+ A: 0.0367696869464644
453
+ C: 0.8896909391606068
454
+ G: 0.0367696869464644
455
+ T: 0.0367696869464644
456
456
  track: nukes
457
457
  extras:
458
458
  ambiguous_char: N
@@ -464,10 +464,10 @@ states:
464
464
  - !!python/object:python.hmmwriter.State
465
465
  emissions:
466
466
  probs:
467
- A: 0.015154723428999999
468
- C: 0.954535829713
469
- G: 0.015154723428999999
470
- T: 0.015154723428999999
467
+ A: 0.036749014910624996
468
+ C: 0.889752955268125
469
+ G: 0.036749014910624996
470
+ T: 0.036749014910624996
471
471
  track: nukes
472
472
  extras:
473
473
  ambiguous_char: N
@@ -479,10 +479,10 @@ states:
479
479
  - !!python/object:python.hmmwriter.State
480
480
  emissions:
481
481
  probs:
482
- A: 0.954535829713
483
- C: 0.015154723428999999
484
- G: 0.015154723428999999
485
- T: 0.015154723428999999
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+ A: 0.889752955268125
483
+ C: 0.036749014910624996
484
+ G: 0.036749014910624996
485
+ T: 0.036749014910624996
486
486
  track: nukes
487
487
  extras:
488
488
  ambiguous_char: N
@@ -494,10 +494,10 @@ states:
494
494
  - !!python/object:python.hmmwriter.State
495
495
  emissions:
496
496
  probs:
497
- A: 0.015154723428999999
498
- C: 0.015154723428999999
499
- G: 0.954535829713
500
- T: 0.015154723428999999
497
+ A: 0.036749014910624996
498
+ C: 0.036749014910624996
499
+ G: 0.889752955268125
500
+ T: 0.036749014910624996
501
501
  track: nukes
502
502
  extras:
503
503
  ambiguous_char: N
@@ -509,10 +509,10 @@ states:
509
509
  - !!python/object:python.hmmwriter.State
510
510
  emissions:
511
511
  probs:
512
- A: 0.015154723428999999
513
- C: 0.015154723428999999
514
- G: 0.954535829713
515
- T: 0.015154723428999999
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513
+ C: 0.036749014910624996
514
+ G: 0.889752955268125
515
+ T: 0.036749014910624996
516
516
  track: nukes
517
517
  extras:
518
518
  ambiguous_char: N
@@ -524,10 +524,10 @@ states:
524
524
  - !!python/object:python.hmmwriter.State
525
525
  emissions:
526
526
  probs:
527
- A: 0.015154723428999999
528
- C: 0.015154723428999999
529
- G: 0.954535829713
530
- T: 0.015154723428999999
527
+ A: 0.036749014910624996
528
+ C: 0.036749014910624996
529
+ G: 0.889752955268125
530
+ T: 0.036749014910624996
531
531
  track: nukes
532
532
  extras:
533
533
  ambiguous_char: N
@@ -539,10 +539,10 @@ states:
539
539
  - !!python/object:python.hmmwriter.State
540
540
  emissions:
541
541
  probs:
542
- A: 0.954535829713
543
- C: 0.015154723428999999
544
- G: 0.015154723428999999
545
- T: 0.015154723428999999
542
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543
+ C: 0.036749014910624996
544
+ G: 0.036749014910624996
545
+ T: 0.036749014910624996
546
546
  track: nukes
547
547
  extras:
548
548
  ambiguous_char: N
@@ -554,10 +554,10 @@ states:
554
554
  - !!python/object:python.hmmwriter.State
555
555
  emissions:
556
556
  probs:
557
- A: 0.954535829713
558
- C: 0.015154723428999999
559
- G: 0.015154723428999999
560
- T: 0.015154723428999999
557
+ A: 0.889752955268125
558
+ C: 0.036749014910624996
559
+ G: 0.036749014910624996
560
+ T: 0.036749014910624996
561
561
  track: nukes
562
562
  extras:
563
563
  ambiguous_char: N
@@ -569,10 +569,10 @@ states:
569
569
  - !!python/object:python.hmmwriter.State
570
570
  emissions:
571
571
  probs:
572
- A: 0.015154723428999999
573
- C: 0.954535829713
574
- G: 0.015154723428999999
575
- T: 0.015154723428999999
572
+ A: 0.036749014910624996
573
+ C: 0.889752955268125
574
+ G: 0.036749014910624996
575
+ T: 0.036749014910624996
576
576
  track: nukes
577
577
  extras:
578
578
  ambiguous_char: N
@@ -584,10 +584,10 @@ states:
584
584
  - !!python/object:python.hmmwriter.State
585
585
  emissions:
586
586
  probs:
587
- A: 0.015154723428999999
588
- C: 0.954535829713
589
- G: 0.015154723428999999
590
- T: 0.015154723428999999
587
+ A: 0.036749014910624996
588
+ C: 0.889752955268125
589
+ G: 0.036749014910624996
590
+ T: 0.036749014910624996
591
591
  track: nukes
592
592
  extras:
593
593
  ambiguous_char: N
@@ -599,10 +599,10 @@ states:
599
599
  - !!python/object:python.hmmwriter.State
600
600
  emissions:
601
601
  probs:
602
- A: 0.015154723428999999
603
- C: 0.954535829713
604
- G: 0.015154723428999999
605
- T: 0.015154723428999999
602
+ A: 0.036749014910624996
603
+ C: 0.889752955268125
604
+ G: 0.036749014910624996
605
+ T: 0.036749014910624996
606
606
  track: nukes
607
607
  extras:
608
608
  ambiguous_char: N
@@ -614,10 +614,10 @@ states:
614
614
  - !!python/object:python.hmmwriter.State
615
615
  emissions:
616
616
  probs:
617
- A: 0.015154723428999999
618
- C: 0.015154723428999999
619
- G: 0.015154723428999999
620
- T: 0.954535829713
617
+ A: 0.036749014910624996
618
+ C: 0.036749014910624996
619
+ G: 0.036749014910624996
620
+ T: 0.889752955268125
621
621
  track: nukes
622
622
  extras:
623
623
  ambiguous_char: N
@@ -629,10 +629,10 @@ states:
629
629
  - !!python/object:python.hmmwriter.State
630
630
  emissions:
631
631
  probs:
632
- A: 0.013333333333333332
633
- C: 0.013333333333333332
634
- G: 0.96
635
- T: 0.013333333333333332
632
+ A: 0.036749014910624996
633
+ C: 0.036749014910624996
634
+ G: 0.889752955268125
635
+ T: 0.036749014910624996
636
636
  track: nukes
637
637
  extras:
638
638
  ambiguous_char: N
@@ -644,10 +644,10 @@ states:
644
644
  - !!python/object:python.hmmwriter.State
645
645
  emissions:
646
646
  probs:
647
- A: 0.015154723428999999
648
- C: 0.015154723428999999
649
- G: 0.954535829713
650
- T: 0.015154723428999999
647
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648
+ C: 0.036749014910624996
649
+ G: 0.889752955268125
650
+ T: 0.036749014910624996
651
651
  track: nukes
652
652
  extras:
653
653
  ambiguous_char: N
@@ -659,10 +659,10 @@ states:
659
659
  - !!python/object:python.hmmwriter.State
660
660
  emissions:
661
661
  probs:
662
- A: 0.015154723428999999
663
- C: 0.015154723428999999
664
- G: 0.015154723428999999
665
- T: 0.954535829713
662
+ A: 0.036749014910624996
663
+ C: 0.036749014910624996
664
+ G: 0.036749014910624996
665
+ T: 0.889752955268125
666
666
  track: nukes
667
667
  extras:
668
668
  ambiguous_char: N
@@ -674,10 +674,10 @@ states:
674
674
  - !!python/object:python.hmmwriter.State
675
675
  emissions:
676
676
  probs:
677
- A: 0.015154723428999999
678
- C: 0.954535829713
679
- G: 0.015154723428999999
680
- T: 0.015154723428999999
677
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678
+ C: 0.889752955268125
679
+ G: 0.036749014910624996
680
+ T: 0.036749014910624996
681
681
  track: nukes
682
682
  extras:
683
683
  ambiguous_char: N
@@ -689,10 +689,10 @@ states:
689
689
  - !!python/object:python.hmmwriter.State
690
690
  emissions:
691
691
  probs:
692
- A: 0.954535829713
693
- C: 0.015154723428999999
694
- G: 0.015154723428999999
695
- T: 0.015154723428999999
692
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693
+ C: 0.036749014910624996
694
+ G: 0.036749014910624996
695
+ T: 0.036749014910624996
696
696
  track: nukes
697
697
  extras:
698
698
  ambiguous_char: N
@@ -704,10 +704,10 @@ states:
704
704
  - !!python/object:python.hmmwriter.State
705
705
  emissions:
706
706
  probs:
707
- A: 0.015154723428999999
708
- C: 0.954535829713
709
- G: 0.015154723428999999
710
- T: 0.015154723428999999
707
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708
+ C: 0.889752955268125
709
+ G: 0.036749014910624996
710
+ T: 0.036749014910624996
711
711
  track: nukes
712
712
  extras:
713
713
  ambiguous_char: N
@@ -719,10 +719,10 @@ states:
719
719
  - !!python/object:python.hmmwriter.State
720
720
  emissions:
721
721
  probs:
722
- A: 0.015154723428999999
723
- C: 0.954535829713
724
- G: 0.015154723428999999
725
- T: 0.015154723428999999
722
+ A: 0.036749014910624996
723
+ C: 0.889752955268125
724
+ G: 0.036749014910624996
725
+ T: 0.036749014910624996
726
726
  track: nukes
727
727
  extras:
728
728
  ambiguous_char: N
@@ -734,10 +734,10 @@ states:
734
734
  - !!python/object:python.hmmwriter.State
735
735
  emissions:
736
736
  probs:
737
- A: 0.013333333333333332
738
- C: 0.013333333333333332
739
- G: 0.96
740
- T: 0.013333333333333332
737
+ A: 0.03833333333333333
738
+ C: 0.03833333333333333
739
+ G: 0.885
740
+ T: 0.03833333333333333
741
741
  track: nukes
742
742
  extras:
743
743
  ambiguous_char: N
@@ -749,10 +749,10 @@ states:
749
749
  - !!python/object:python.hmmwriter.State
750
750
  emissions:
751
751
  probs:
752
- A: 0.013333333333333332
753
- C: 0.013333333333333332
754
- G: 0.013333333333333332
755
- T: 0.96
752
+ A: 0.036749014910624996
753
+ C: 0.036749014910624996
754
+ G: 0.036749014910624996
755
+ T: 0.889752955268125
756
756
  track: nukes
757
757
  extras:
758
758
  ambiguous_char: N
@@ -764,10 +764,10 @@ states:
764
764
  - !!python/object:python.hmmwriter.State
765
765
  emissions:
766
766
  probs:
767
- A: 0.015154723428999999
768
- C: 0.954535829713
769
- G: 0.015154723428999999
770
- T: 0.015154723428999999
767
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768
+ C: 0.889752955268125
769
+ G: 0.036749014910624996
770
+ T: 0.036749014910624996
771
771
  track: nukes
772
772
  extras:
773
773
  ambiguous_char: N
@@ -779,10 +779,10 @@ states:
779
779
  - !!python/object:python.hmmwriter.State
780
780
  emissions:
781
781
  probs:
782
- A: 0.015154723428999999
783
- C: 0.015154723428999999
784
- G: 0.015154723428999999
785
- T: 0.954535829713
782
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783
+ C: 0.036749014910624996
784
+ G: 0.036749014910624996
785
+ T: 0.889752955268125
786
786
  track: nukes
787
787
  extras:
788
788
  ambiguous_char: N
@@ -794,10 +794,10 @@ states:
794
794
  - !!python/object:python.hmmwriter.State
795
795
  emissions:
796
796
  probs:
797
- A: 0.015154723428999999
798
- C: 0.954535829713
799
- G: 0.015154723428999999
800
- T: 0.015154723428999999
797
+ A: 0.036749014910624996
798
+ C: 0.889752955268125
799
+ G: 0.036749014910624996
800
+ T: 0.036749014910624996
801
801
  track: nukes
802
802
  extras:
803
803
  ambiguous_char: N
@@ -809,10 +809,10 @@ states:
809
809
  - !!python/object:python.hmmwriter.State
810
810
  emissions:
811
811
  probs:
812
- A: 0.015154723428999999
813
- C: 0.954535829713
814
- G: 0.015154723428999999
815
- T: 0.015154723428999999
812
+ A: 0.036749014910624996
813
+ C: 0.889752955268125
814
+ G: 0.036749014910624996
815
+ T: 0.036749014910624996
816
816
  track: nukes
817
817
  extras:
818
818
  ambiguous_char: N
@@ -824,10 +824,10 @@ states:
824
824
  - !!python/object:python.hmmwriter.State
825
825
  emissions:
826
826
  probs:
827
- A: 0.015154723428999999
828
- C: 0.015154723428999999
829
- G: 0.015154723428999999
830
- T: 0.954535829713
827
+ A: 0.036749014910624996
828
+ C: 0.036749014910624996
829
+ G: 0.036749014910624996
830
+ T: 0.889752955268125
831
831
  track: nukes
832
832
  extras:
833
833
  ambiguous_char: N
@@ -839,10 +839,10 @@ states:
839
839
  - !!python/object:python.hmmwriter.State
840
840
  emissions:
841
841
  probs:
842
- A: 0.015154723428999999
843
- C: 0.954535829713
844
- G: 0.015154723428999999
845
- T: 0.015154723428999999
842
+ A: 0.036749014910624996
843
+ C: 0.889752955268125
844
+ G: 0.036749014910624996
845
+ T: 0.036749014910624996
846
846
  track: nukes
847
847
  extras:
848
848
  ambiguous_char: N
@@ -854,10 +854,10 @@ states:
854
854
  - !!python/object:python.hmmwriter.State
855
855
  emissions:
856
856
  probs:
857
- A: 0.954535829713
858
- C: 0.015154723428999999
859
- G: 0.015154723428999999
860
- T: 0.015154723428999999
857
+ A: 0.889752955268125
858
+ C: 0.036749014910624996
859
+ G: 0.036749014910624996
860
+ T: 0.036749014910624996
861
861
  track: nukes
862
862
  extras:
863
863
  ambiguous_char: N
@@ -869,10 +869,10 @@ states:
869
869
  - !!python/object:python.hmmwriter.State
870
870
  emissions:
871
871
  probs:
872
- A: 0.015154723428999999
873
- C: 0.015154723428999999
874
- G: 0.954535829713
875
- T: 0.015154723428999999
872
+ A: 0.036749014910624996
873
+ C: 0.036749014910624996
874
+ G: 0.889752955268125
875
+ T: 0.036749014910624996
876
876
  track: nukes
877
877
  extras:
878
878
  ambiguous_char: N