| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,703,248 | A→G | 30.3% | intergenic (+97/‑70) | lysS → / → PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,703,248 | 0 | A | G | 30.3% | 38.1 / 20.9 | 33 | intergenic (+97/‑70) | lysS/PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base A (9/14); new base G (7/3); total (16/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.41e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.25e-01 | |||||||||||
GTCGATCCGCGACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCG > NC_002947/1703103‑1703394 | gTCGATCCGCGACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGc < 5:398111/149‑1 (MQ=255) tCGATCCGCGACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGcc < 8:15184/149‑1 (MQ=255) gATCCGCGACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑tt < 5:342188/149‑1 (MQ=255) aTCCGCGACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑tt < 1:60486/149‑1 (MQ=255) gcgACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAg > 8:101893/1‑148 (MQ=255) cgACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGa < 8:230390/149‑1 (MQ=255) gACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTGCTGG‑CCCCTTCGCGGGTAAACCCGCTCCTACAAGGCCT‑TTGTAGGAg < 4:81130/149‑1 (MQ=37) aCGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAGGCCT‑TTGTAGGAGc < 7:128949/149‑1 (MQ=255) gTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCgg < 7:101893/149‑1 (MQ=255) cATCCTGTTCCCGCACCTGCGTCCGCAGGCCTGAGTGAGCTGCACGAGCCGCCTTTCGAGGCGGCTGTTTCTTGCCTGAAGCTTTATGTGGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCGGGt < 5:343249/149‑1 (MQ=255) aTCCTGTTCTCGCACTTGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCGTTTCTAGGCGGCTTTTTCTTGCATGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCTCTCCTACAAAGGCC‑TTGTAGGAGCGGGt < 7:125480/148‑1 (MQ=39) aTCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCGGGt < 1:20051/148‑1 (MQ=255) tCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCgg > 4:352769/1‑145 (MQ=255) tCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCgg < 3:352769/145‑1 (MQ=255) cccGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCCCTTCGCGGGTAAACCCGCTCCTACAAGGCCT‑TTGTAGGAGCggg > 7:371271/1‑139 (MQ=255) cccGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCCCTTCGCGGGTAAACCCGCTCCTACAAGGCCT‑TTGTAGGAGCggg < 8:371271/139‑1 (MQ=255) gCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCgg < 5:241940/135‑1 (MQ=255) gCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACACGCTCCTACAAAGGCC‑TTGTAGGAGCgg > 6:241940/1‑135 (MQ=255) ccGCTCCTACAAGGCCT‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCaa > 5:96141/1‑148 (MQ=255) ccGCTCCTACAAGGCCT‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCaa > 7:235445/1‑148 (MQ=255) cGCTCCTACAAGGCCT‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACCCCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCACGGCGCCGCCGGCATCGCCACCGCCGTCGCGGAAAGCGTGCAATa > 4:35608/1‑149 (MQ=38) gCTCCTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGAc > 8:312045/1‑101 (MQ=255) gCTCCTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGAc < 7:312045/101‑1 (MQ=255) tCCTACAAGGCCT‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCAGAAAGAGTGCAATAcc > 4:248559/1‑148 (MQ=38) tCCTACAAGGCCT‑TTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGCCACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAACGCGTGCAATAcc > 8:10334/1‑148 (MQ=38) cTACAAGGCCT‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAg > 1:363640/1‑149 (MQ=255) cTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGc < 2:164807/129‑1 (MQ=255) cTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGc > 1:164807/1‑129 (MQ=255) cTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAg > 4:208098/1‑149 (MQ=255) cTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAg > 8:206843/1‑149 (MQ=255) aCAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCTGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGaaa < 3:364115/132‑1 (MQ=255) aCAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCGGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGaaa > 4:364115/1‑132 (MQ=255) cAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGcc > 1:252422/1‑149 (MQ=255) acaaGGCCTTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCAAGAGCTATCACCCGTGACACCCGCCATGCCTGACCAAGGCCCCGCCGGCATACCCACCGCCGGCGCCGAAAGCGTGCAATACCAAGGc > 1:388335/3‑149 (MQ=38) acaaGGCCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACTGACAAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGc > 7:144462/3‑149 (MQ=37) aaaGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCg > 7:350631/1‑149 (MQ=255) | GTCGATCCGCGACGTCATCCTGTTCCCGCACATGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGG‑CCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCC‑TTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAAACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCG > NC_002947/1703103‑1703394 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |