| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,196,073 | G→C | 7.3% | G43A (GGC→GCC) | xcpQ → | type II secretion pathway protein XcpQ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,196,073 | 0 | G | C | 7.3% | 197.5 / 4.4 | 65 | G43A (GGC→GCC) | xcpQ | type II secretion pathway protein XcpQ |
| Reads supporting (aligned to +/- strand): ref base G (34/26); new base C (2/3); total (36/29) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.49e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
TTCAAGCGGCAAGGATGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTGCGCGCCCAGGGC > NC_002947/1195925‑1196221 | ttCAAGCGGCAAGGATGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGc > 1:1137225/1‑150 (MQ=255) gCGGCAAGGATGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGtt > 1:1406630/1‑150 (MQ=255) cGGCAAGGATGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGCCAACGGTACGCGGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTc < 2:839808/150‑1 (MQ=255) gCAAGGATGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCAt < 1:80900/150‑1 (MQ=255) gCAAGGATGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGCCGAGTTcgg < 1:361152/150‑3 (MQ=255) aaTGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATc > 1:716208/2‑146 (MQ=255) aaTGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATc < 2:716208/145‑1 (MQ=255) aTGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTcg > 1:1029015/1‑150 (MQ=255) gatcaGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCAt > 2:1056762/5‑150 (MQ=255) gATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCg < 1:1246806/150‑1 (MQ=255) tACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGc > 1:797756/1‑117 (MQ=255) tACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGc < 2:797756/117‑1 (MQ=255) tACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGc > 2:1563519/1‑150 (MQ=255) cTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGcac < 2:1137225/150‑1 (MQ=255) ggcTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCAt < 2:749052/150‑1 (MQ=255) tGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCAtcgt > 2:1033082/1‑150 (MQ=255) tGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCAtcgt < 1:1056762/150‑1 (MQ=255) tCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGc < 2:1029015/150‑1 (MQ=255) cATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATATGGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCaa > 1:933116/1‑150 (MQ=255) cATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCAc > 2:1368278/1‑111 (MQ=255) cATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCAc < 1:1368278/111‑1 (MQ=255) aTGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGcaccac > 2:1112343/1‑119 (MQ=255) aTGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGcaccac < 1:1112343/119‑1 (MQ=255) aTGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAg < 2:1066067/150‑1 (MQ=255) tGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAgg > 1:728511/1‑150 (MQ=255) tATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCAcc < 2:728511/150‑1 (MQ=255) tGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCCTCGACCCCCGGGTCAAGGGCAAGGTCACCGt > 2:340594/1‑150 (MQ=255) cccAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTgc > 1:340596/1‑150 (MQ=255) ccAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTgcg > 2:494075/1‑150 (MQ=255) cAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAg > 2:1246750/1‑132 (MQ=255) cAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAg < 1:1246750/132‑1 (MQ=255) aaGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCa < 1:1563519/150‑1 (MQ=255) ccGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCAcc > 2:915216/1‑147 (MQ=255) ccGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCAcc < 1:915216/147‑1 (MQ=255) ccGGTGCTCGACGACAACGGTACGCCCATGTACGAAGTGAATTTCGTCGAAACCGAGCCGGGGGATGTCCAGTTCGTTCTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTc < 1:1191244/150‑1 (MQ=255) gtgtTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGAc > 2:179315/1‑150 (MQ=255) tCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGc > 1:167853/1‑150 (MQ=255) tGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGc < 2:560177/52‑1 (MQ=255) tGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGc > 1:560177/1‑52 (MQ=255) gACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCacgac < 2:1406630/150‑1 (MQ=255) aaCGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAg < 2:1074081/111‑1 (MQ=255) aaCGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAg > 1:1074081/1‑111 (MQ=255) gCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCACAGGCAAGGTCACCGTGCGCACCGGCGACCTGCCCGACGCCGACGCCAt > 2:213227/1‑150 (MQ=255) gATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTa > 1:833722/1‑150 (MQ=255) cGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACAt > 1:650856/1‑150 (MQ=255) gAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATc > 2:1083839/1‑150 (MQ=255) gTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAg > 2:858148/1‑90 (MQ=255) gTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAg < 1:858148/90‑1 (MQ=255) gTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGAc > 2:523407/1‑117 (MQ=255) gTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGAc < 1:523407/117‑1 (MQ=255) aTTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTgg < 1:1033082/150‑1 (MQ=255) tttCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTgg > 1:1054448/1‑149 (MQ=255) tttCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTgg < 2:1054448/149‑1 (MQ=255) gtcgATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCaa > 2:54925/1‑150 (MQ=255) tcgATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAAc > 1:876643/1‑150 (MQ=255) gATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCAtcgtcg > 2:180460/1‑64 (MQ=255) gATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCAtcgtcg < 1:180460/64‑1 (MQ=255) aTACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTgc > 1:1632910/1‑150 (MQ=255) ccGAACTCGGCGAGTTCATCGACAGCGGGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTgcgcg > 2:1318784/1‑150 (MQ=255) gAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTGCGCGcc < 1:494075/150‑1 (MQ=255) aCTCGCCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCa > 1:911438/1‑50 (MQ=255) aCTCGCCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCa < 2:911438/50‑1 (MQ=255) aCTCGCCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCa < 2:911688/50‑1 (MQ=255) aCTCGCCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCa > 1:911688/1‑50 (MQ=255) tCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTGCGCGCCCAgg > 2:1065347/1‑150 (MQ=255) ggCGAGTTCATCGACAGCGTGTCGCGCATCCCCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTGCGCGCCCAGGGc > 2:382857/1‑150 (MQ=255) ggCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTGCGCGCCCAGGGc > 1:834220/1‑150 (MQ=255) | TTCAAGCGGCAAGGATGAACGATGCCTGTTAGATACTGCATGGCGGCTGCGCTGAGCCTGGCCTTGTCCATGGCCTATGCCCAAGAGCCGGTGTTCGATGACAACGGTACGCCGATGTACGAAGTGAATTTCGTCGATACCGAACTCGGCGAGTTCATCGACAGCGTGTCGCGCATCACCGGCACCACCTTCATCGTCGACCCCCGGGTCAAGGGCAAGGTCACCGTGCGCACCGTCGACCTGCACGACGCCGACGCCATCTACGACATCTTCCTGGCCCAACTGCGCGCCCAGGGC > NC_002947/1195925‑1196221 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |