Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 5,746,541 | G→C | 9.8% | intergenic (+32/+67) | PP_5042 → / ← PP_5043 | hypothetical protein/PhoPQ‑activated pathogenicity‑like protein |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 5,746,541 | 0 | G | C | 9.8% | 117.9 / 4.2 | 41 | intergenic (+32/+67) | PP_5042/PP_5043 | hypothetical protein/PhoPQ‑activated pathogenicity‑like protein |
Reads supporting (aligned to +/- strand): ref base G (20/17); new base C (2/2); total (22/19) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.76e-01 |
TAAAAGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCAAAACGCTGA > NC_002947/5746395‑5746687 | tAAAAGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCgcgg > 2:696187/1‑150 (MQ=255) aaaaGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCgcggg < 2:1220258/150‑1 (MQ=255) aaGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCgcgggcg > 2:47591/1‑150 (MQ=255) ggCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCAAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCt < 1:630424/150‑1 (MQ=255) tgCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGAtt < 1:713452/150‑1 (MQ=255) cACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCt > 2:190905/1‑150 (MQ=255) cACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCt > 2:1284187/1‑150 (MQ=255) cccGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTgg < 1:419044/150‑1 (MQ=255) aTACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATg < 1:190905/150‑1 (MQ=255) ccTGCCGCAACCACCCCAAGGACCGGGCACGTCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAg < 1:643061/150‑1 (MQ=255) cTGCCGCAACCACCCCAAGGTTGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGc > 2:489328/1‑150 (MQ=255) cTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGc > 2:543102/1‑150 (MQ=255) cTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGc > 2:155540/1‑150 (MQ=255) cTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCCCGCGCGGCGCTc > 2:688989/1‑117 (MQ=255) cTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCCCGCGCGGCGCTc < 1:688989/117‑1 (MQ=255) tGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCa > 1:1258371/1‑150 (MQ=255) gCCGCAACCACCCCAAGGTTGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCAc < 1:489328/150‑1 (MQ=255) caccCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCa < 1:1132495/150‑1 (MQ=255) gCCACGGCCGGGGTATTGCGCCTACACGACCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGAGCGGGCGGCGCACGATTCCTGCGCAATTCGCAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTca < 1:543102/150‑1 (MQ=255) gggTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCgggg < 1:47591/150‑1 (MQ=255) ttGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTgg > 2:1181080/1‑102 (MQ=255) ttGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTgg < 1:1181080/102‑1 (MQ=255) cgcCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCg < 1:258736/150‑1 (MQ=255) gcCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCgg > 2:353700/1‑150 (MQ=255) aaGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCa > 2:856588/1‑150 (MQ=255) ggtTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATc > 1:148474/1‑150 (MQ=255) gtTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATcc < 1:155540/150‑1 (MQ=255) gtTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCCCGCGCGGCGCTc < 1:282502/56‑1 (MQ=18) gtTGGGAGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCCCGCGCGGCGCTc > 2:282502/1‑56 (MQ=17) cGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCtggt < 1:696187/150‑1 (MQ=255) ttGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCtggtgg > 1:1283705/1‑150 (MQ=255) gTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTcc < 1:724074/118‑1 (MQ=255) gTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTcc > 2:724074/1‑118 (MQ=255) tCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCt > 1:950993/1‑150 (MQ=255) ttGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCa < 1:856588/150‑1 (MQ=255) ttGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTAGATTCTGTAGCAATGGTGGCCTGGGCATAAAGAACGGAACCGACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCa > 1:797970/1‑150 (MQ=255) gggCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGt > 1:1059626/1‑150 (MQ=255) aaaTCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATg > 1:247469/1‑56 (MQ=255) aaaTCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATg < 2:247469/56‑1 (MQ=255) aaTCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGc > 1:995632/1‑107 (MQ=255) aaTCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGc < 2:995632/107‑1 (MQ=255) cGAGCGCCGCGCGGGCGGCGCGCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCaaa > 2:666545/1‑150 (MQ=255) gccgcGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTATGCGGCAAAACGCt > 1:43429/1‑150 (MQ=255) ccgcGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCAAAACGCTg > 1:548004/1‑150 (MQ=255) cgcgcgGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCAAAACGCCGa < 1:1284187/150‑1 (MQ=255) | TAAAAGCCGGCTGTGCACCATTTATGACAAGCGCCCGGATACCTGCCGCAACCACCCCAAGGTCGGGCCACGGCCGGGGTATTGCGCCTACAAGCCCAAGGTGGTTGGGCGTTGAGTCTTGCGCCGGGGCATAAATCGAGCGCCGCGCGGGCGGCGCTCGATTCTGTGGCGATGCCGAGCTGGGCATGAAGCACTGAACCCACCGCTCCCATTTCAGCCAGCGGGGAAGCTCCGGCAAGCACCCCCCTGATCCGCTGGTGGATGCTCAGGATAAGTCTGCGGCAAAACGCTGA > NC_002947/5746395‑5746687 |
Alignment Legend |
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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: ‑ |