| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 5,746,541 | G→C | 16.0% | intergenic (+32/+67) | PP_5042 → / ← PP_5043 | hypothetical protein/PhoPQ‑activated pathogenicity‑like protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 5,746,541 | 0 | G | C | 16.0% | 58.5 / 6.4 | 25 | intergenic (+32/+67) | PP_5042/PP_5043 | hypothetical protein/PhoPQ‑activated pathogenicity‑like protein |
| Reads supporting (aligned to +/- strand): ref base G (11/10); new base C (2/2); total (13/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.78e-01 | |||||||||||
AAAAGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCAAAACGCTGACCG > NC_002947/5746396‑5746690 | aaaaGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑gcggg < 2:80421/150‑1 (MQ=255)aaaaGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑gcggg > 2:768224/1‑150 (MQ=255) tgtgCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGa < 1:591379/150‑1 (MQ=255) cccGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTgg < 1:594074/150‑1 (MQ=255) ccTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑CCGCGCGgcgc < 1:799166/116‑1 (MQ=255) ccTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑CCGCGCGgcgc > 2:799166/1‑116 (MQ=255) gCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑CCGCGCGGCGCTc > 2:768915/1‑112 (MQ=255) gCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑CCGCGCGGCGCTc < 1:768915/112‑1 (MQ=255) ccAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGc > 1:817367/1‑150 (MQ=255) cAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAATTTGTTGGGGCGGTGAGTCTTGCGCTGGGTCATCAATTCA‑CTCCACAGCGGTGGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGCCGCACAGAACCCACCGCt > 1:700668/1‑150 (MQ=255) cAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTgg > 2:547560/1‑126 (MQ=255) cAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTgg < 1:547560/126‑1 (MQ=255) aTTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACt > 1:465944/1‑115 (MQ=255) aTTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACt < 2:465944/115‑1 (MQ=255) cTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGc < 2:186387/83‑1 (MQ=255) cTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGc > 1:186387/1‑83 (MQ=255) aaGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCa > 1:519211/1‑150 (MQ=255) cccAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGAGCATAAATCGAACGCCGC‑GCGGGCGGCGCTCGATGCTGTGGCGATGCACACCTGGGTATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCAccc > 1:700383/1‑150 (MQ=255) gtTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATcc < 1:698601/150‑1 (MQ=255) gtTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATcc > 1:422278/1‑150 (MQ=255) aGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATg < 2:421394/150‑1 (MQ=255) gggCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGc > 1:711750/1‑129 (MQ=255) gggCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGc < 2:711750/129‑1 (MQ=255) tCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCa > 2:462440/1‑133 (MQ=255) tCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCa < 1:462440/133‑1 (MQ=255) gccgc‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGaa < 2:135953/87‑1 (MQ=255) gccgc‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGaa > 1:135953/1‑87 (MQ=255) gcgggcggCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCAAAACGCTGACCg < 2:700668/150‑1 (MQ=255) | AAAAGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGC‑GCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCAAAACGCTGACCG > NC_002947/5746396‑5746690 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |