| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 3,876,562 | Δ1 bp | 10.5% | 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 | . | 10.5% | 114.2 / 8.1 | 38 | coding (1010/1212 nt) | xcpS | type II secretion pathway protein XcpS |
| Reads supporting (aligned to +/- strand): ref base T (14/20); new base . (2/2); total (16/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.00e-01 | |||||||||||
ACCGCCATGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCCTGCT > NC_002947/3876417‑3876700 | cccGCCATGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCGGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTgcgc < 2:546567/149‑1 (MQ=255) cGCCATGGGCATGGCCCGCGGCCTGCTCTGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTgcgc‑gc > 1:528280/1‑150 (MQ=255) gtgCATTGCCCGCGGCCTGCTCGCCACCGCGGCCGCGGCTGGCCTTCGTGATGGCTGCCAGCGGGTGGGCGAAGGTCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGTCTGCTGCGC‑GCAGGCGa < 2:437807/148‑1 (MQ=255) gCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCgcag < 2:427367/150‑4 (MQ=255) tGCTCGGCAACGCAGCATCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTgg > 1:20060/1‑150 (MQ=255) cGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCTTCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCt < 2:496615/150‑1 (MQ=255) gcagcaGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTg < 2:741465/150‑1 (MQ=255) gcagcaGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTg < 1:364688/150‑1 (MQ=255) agcagcGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGa > 2:489572/1‑150 (MQ=255) cTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGAc < 1:409489/150‑1 (MQ=255) aGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTcc < 2:250862/150‑1 (MQ=255) gCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCa < 1:29382/150‑1 (MQ=255) ggCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGa < 1:334533/150‑1 (MQ=255) gccagccaGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGAc > 1:182925/1‑150 (MQ=255) gcGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTCGAGCGCTGCGCCGACTTCCATCACCAGGtaaa > 2:394249/1‑149 (MQ=255) cGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGC‑GCGCAGCAGGCgcagg < 1:231486/84‑5 (MQ=38) cGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGC‑GCGCAGCAGGCgcagg > 2:231486/1‑80 (MQ=38) gCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATg > 1:763737/1‑150 (MQ=255) gCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATg < 2:528280/150‑1 (MQ=255) cGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGt > 2:785493/1‑150 (MQ=255) cTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTc < 1:785493/150‑1 (MQ=255) cTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGAGAGATGGTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCGGTTGGGTGGAATGGTTc < 2:117867/150‑1 (MQ=255) tttCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTAGCCCTGAGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGGGCTGCGCCGACTTCCATGAACAGGAAATCGGCCGTTGGGGGGAATGGTTCg > 2:67626/1‑150 (MQ=255) gATGCTCTGGCGGCCGGGCACCTGGTGACGACGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCaaa < 1:394249/150‑1 (MQ=255) ctGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTc < 1:139121/150‑1 (MQ=255) ctGGCGGCCGGGCACCTGGTGACGCCGGTAGCCCTGCGCCTGGTGCGA‑GCAGGCGAGAAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGTCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTc < 2:372508/150‑1 (MQ=255) ggCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCAt < 1:288638/95‑1 (MQ=255) ggCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCAt > 2:288638/1‑95 (MQ=255) tGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCtgatga > 2:766134/1‑150 (MQ=255) ggTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATg < 1:223661/117‑1 (MQ=255) ggTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATg > 2:223661/1‑117 (MQ=255) ggTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGAc > 1:656045/1‑150 (MQ=255) cGCCGGTATACATGCGCCTGCTGCGC‑GCAGGCGAACAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCa < 1:770346/150‑1 (MQ=255) ccGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATc < 1:766134/150‑1 (MQ=255) ggTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCgg > 2:372514/1‑150 (MQ=255) tgctcgcCTGC‑GCGCAGCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGt > 2:297231/5‑96 (MQ=255) tgctcgcCTGC‑GCGCAGCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGt < 1:297231/92‑1 (MQ=255) ccTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCctgct > 2:717676/1‑150 (MQ=255) | ACCGCCATGGGCATGGCCCGCGGCCTGCTCGGCAACGCAGCAGCGCAGGGCCTGGAGCAGGCCAGCCAGCGGGTGGGCGAAGGGCTGCCGCTTTCCGATGCTCTGGCGGCCGGGCACCTGGTGACGCCGGTATCCCTGCGCCTGCTGCGC‑GCAGGCGAGCAGTCTGGCAACCTGGGCGAGATGCTGGAGCGCTGCGCCGACTTCCATGACCAGGAAATCGGCCGTTGGGTGGAATGGTTCGTCAAACTGTTCGAACCGCTGCTGATGACCTTCATCGGCCTGCT > NC_002947/3876417‑3876700 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |