| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 3,876,562 | Δ1 bp | 7.8% | coding (1010/1212 nt) | xcpS → | type II secretion pathway protein XcpS |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 3,876,562 | 0 | T | . | 7.8% | 153.0 / 7.4 | 51 | coding (1010/1212 nt) | xcpS | type II secretion pathway protein XcpS |
| Reads supporting (aligned to +/- strand): ref base T (18/29); new base . (2/2); total (20/31) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.40e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.69e-01 | |||||||||||
ACCGCCATGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCCTGCTGATCG > NC_002947/3876417‑3876705 | aCCGCCATGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTgcgc < 1:424450/150‑1 (MQ=255) gCCATGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCa < 2:580088/150‑1 (MQ=255) aTGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGATCGGCAGACGCTATCC‑ACACTGCGCGCGTGGGTGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGc > 1:878694/1‑150 (MQ=255) aTGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGc < 1:1317782/150‑1 (MQ=255) tGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCg > 2:895157/1‑150 (MQ=255) gggCATGGCCCGCGGCCTGCTCGGCAAGGGAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGa < 1:1072459/150‑1 (MQ=255) ggCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAg < 1:1012887/150‑1 (MQ=255) gCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGc > 2:1047858/1‑150 (MQ=255) gCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGc > 1:121100/1‑150 (MQ=255) gCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGC‑GCGCAGCAGGCgcag < 1:1062417/150‑4 (MQ=255) cATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCa < 2:124419/150‑1 (MQ=255) aTGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAg > 1:17801/1‑150 (MQ=255) ccGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTgg < 2:100433/150‑1 (MQ=255) tCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCg > 2:1180559/1‑150 (MQ=255) ggCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCgag < 1:740958/150‑1 (MQ=255) cAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGAt < 2:1173836/150‑1 (MQ=255) gcagcGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGTGGCCGGGCATCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCt > 2:1100565/1‑126 (MQ=255) gcagcGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGTGGCCGGGCATCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCt < 1:1100565/126‑1 (MQ=255) aGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTgcg > 1:1181042/1‑150 (MQ=255) tGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACt > 1:1392488/1‑150 (MQ=255) gAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTc < 1:821627/150‑1 (MQ=255) ggCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGa > 2:319001/1‑150 (MQ=255) gccagccaGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGAc < 2:1189178/150‑1 (MQ=255) gccagccaGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCACTGCGCCGACTTCCATGAc > 1:9718/1‑150 (MQ=255) cagccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCgaga < 2:1241740/119‑1 (MQ=255) cagccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCgaga > 1:1241740/1‑119 (MQ=255) cagccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCa < 1:796226/150‑1 (MQ=255) agccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAg > 1:1187953/1‑150 (MQ=255) gccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAgg > 1:658798/1‑150 (MQ=255) gCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCACTGCGCCGACTTCCATGACCAGGAAATCGGCCGtt < 2:9718/150‑1 (MQ=255) aGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGt < 2:768323/150‑1 (MQ=255) cGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGt < 1:888426/150‑1 (MQ=255) cTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTc < 2:493978/150‑1 (MQ=255) tttCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCg < 2:878694/150‑1 (MQ=255) t‑ctGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGTTTCGTCAAACTGtt < 2:1208390/150‑1 (MQ=255) t‑ctGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGtt < 1:1304736/150‑1 (MQ=255) ctGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTc < 2:17801/150‑1 (MQ=255) ccGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCgc < 1:895157/150‑1 (MQ=255) cGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATg < 2:995565/126‑1 (MQ=255) cGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATg > 1:995565/1‑126 (MQ=255) aCCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCtga < 1:705774/150‑1 (MQ=255) gTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGAcc < 2:1181042/150‑1 (MQ=255) gTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGGTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGAGGAcc > 1:513670/1‑150 (MQ=255) aTCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCct > 1:251752/1‑150 (MQ=255) ccccGCGCCTGCTGCGC‑GCAGGCGCGCAGTATGGCAACCGTTGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCctgc < 1:671996/150‑1 (MQ=255) ccTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCctgct < 2:251752/150‑1 (MQ=255) cTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAGCTGTTCGAACCGCTGCTGATGACCTTCATCGGCctgctg > 1:1143833/1‑150 (MQ=255) ctcgcCTGC‑GCGCAGCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGAcc < 2:847109/132‑1 (MQ=255) ctcgcCTGC‑GCGCAGCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGAcc > 1:847109/3‑134 (MQ=255) tcgcCTGC‑GCGCAGCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGTTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCCTGCTGAt > 1:772953/2‑150 (MQ=255) gcCTGCTGCGC‑GCAGGCGAGGAGGCTGGCAACCCGGGGGAGAGGGCGATACAGTGCGGCAACTTTCGTGACCAGTATAGCGGCGGTTGCGTCGACCGGTTCGTCCAACTCTTCGACCACATCCTGTTGGGCTTCAGCGGCCTGGTGAtgg < 2:666652/150‑3 (MQ=255) | ACCGCCATGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCT‑CTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCCTGCTGATCG > NC_002947/3876417‑3876705 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |