| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 3,876,566:1 | +A | 23.5% | coding (1014/1212 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 | 3,876,566 | 1 | . | A | 23.5% | 32.2 / 13.6 | 17 | coding (1014/1212 nt) | xcpS | type II secretion pathway protein XcpS |
| Reads supporting (aligned to +/- strand): ref base . (8/5); new base A (2/2); total (10/7) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.60e-01 | |||||||||||
GCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCCTGCTG > NC_002947/3876427‑3876701 | gCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGC‑GCGCAGCAGGCgcag < 2:265152/150‑4 (MQ=255) cATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCa > 1:284522/1‑150 (MQ=255) aTGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAg > 2:301056/1‑150 (MQ=255) gCTCCGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTggg < 1:400348/150‑1 (MQ=255) cGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCga < 2:284522/150‑1 (MQ=255) ggCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGC‑GCGCAGCAGGCgcag < 2:418572/130‑4 (MQ=255) ggCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGC‑GCGCAGCAGGCgcag > 1:418572/1‑127 (MQ=255) cagccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCa > 2:431766/1‑150 (MQ=255) cagccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATAACCa > 1:298100/1‑150 (MQ=255) ccagcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGa > 1:151873/1‑150 (MQ=255) gATGCTCTGGCGGCCGGGCACCTGGTGACGCCTGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCaaa < 1:431766/150‑1 (MQ=255) ggcCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAAcc > 2:255208/1‑150 (MQ=255) cGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCgct > 1:128199/1‑150 (MQ=255) cGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCa < 2:195484/150‑1 (MQ=255) ccTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCgctgc > 2:378023/1‑128 (MQ=255) ccTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCgctgc < 1:378023/128‑1 (MQ=255) gctcgcCTGC‑GCGCAGCAGGCGCGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCctgctg > 2:260926/4‑150 (MQ=255) | GCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCCTGCTG > NC_002947/3876427‑3876701 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |