| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,334,704 | 0 | G | C | 20.0% | 93.3 / 20.5 | 40 | intergenic (+23/‑205) | ispB/sfsB | octaprenyl diphosphate synthase/malPQ operon transcriptional activator |
| Reads supporting (aligned to +/- strand): ref base G (15/17); new base C (4/4); total (19/21) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.63e-01 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TCAGCGTGCCGAGGAAGAAGCAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCATCAGGAGTATAGTG > NC_000913/3334564‑3334851 | tCAGCGTGCCGAGGAAGAAGCAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCGTCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAgc > 3:107627/1‑142 (MQ=255)tCAGCGTGCCGAGGAAGAAGCAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCGTCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAgc < 4:107627/142‑1 (MQ=255) cGTGCCGAGGAAGAAGCAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTTGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCGCTGCGCGGGATga < 4:123734/149‑2 (MQ=255) gCAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTaa < 8:1144/143‑1 (MQ=255) gCAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTaa > 7:1144/1‑143 (MQ=255) cAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCAt < 4:135539/149‑1 (MQ=255) tCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCGCTGCGCGGGATgagg < 6:18596/123‑4 (MQ=255) tCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCGCTGCGCGGGATgagg > 5:18596/1‑120 (MQ=255) gCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTc < 8:60597/122‑1 (MQ=255) gTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAaca > 5:154853/1‑149 (MQ=255) acCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAg > 6:58009/1‑149 (MQ=255) cccTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATaaaa < 1:87935/113‑1 (MQ=255) ccTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCGCTGCGCGGGATga < 6:6133/92‑2 (MQ=39) ccTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCGCTGCGCGGGATga > 5:6133/1‑91 (MQ=39) ttGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTcc < 3:42444/104‑1 (MQ=255) ttGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTcc > 4:42444/1‑104 (MQ=255) gCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATa > 5:125062/1‑133 (MQ=255) gCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATa < 6:125062/133‑1 (MQ=255) aTCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCGCTGCGCGGGa < 7:91065/71‑1 (MQ=39) aTCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCGCTGCGCGGGa > 8:91065/1‑71 (MQ=39) aTCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATAtt > 3:8860/1‑149 (MQ=255) ccTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGaa < 6:154853/149‑1 (MQ=255) cTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAgg < 8:112147/123‑1 (MQ=255) cTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAgg > 7:112147/1‑123 (MQ=255) gcACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTca < 6:58362/149‑1 (MQ=255) cTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCtt > 8:50862/1‑148 (MQ=255) ttCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTa > 2:41920/1‑147 (MQ=255) aTCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACtttt < 4:3210/149‑1 (MQ=255) cGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACtttt < 8:20428/147‑1 (MQ=255) cGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACtttt > 7:20428/1‑147 (MQ=255) cctcccctcATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTc > 6:137198/1‑117 (MQ=255) cctcccctcATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTc < 5:137198/117‑1 (MQ=255) ctcATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATa > 8:45959/1‑79 (MQ=255) ctcATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCtt < 1:11493/119‑1 (MQ=255) ctcATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCtt > 2:11493/1‑119 (MQ=255) ctcATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCAt > 7:68863/1‑148 (MQ=255) ctcATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCATc < 7:50862/149‑1 (MQ=255) cATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCATCAg > 8:71702/1‑149 (MQ=255) aTCCCGCGCGCTGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCATCAg > 7:67120/1‑148 (MQ=255) ccGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCt < 6:146252/97‑1 (MQ=255) cgcgCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCATCAGGAGta < 5:58009/149‑1 (MQ=255) aGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCATCAGGAGTATAGTg < 1:41920/149‑1 (MQ=255) | TCAGCGTGCCGAGGAAGAAGCAGACAAAGCCATCGCAGCGTTACAGGTGCTCCCGGACACCCCTTGGCGAGAAGCACTCATCGGCCTCGCGCACATCGCTGTTCAACGCGATCGTTAATCCCCTCCCCTCATCCCGCGCAGCGCGCGGGATGGTTCCAGTAAGTTCCATAAAAACACTTATTCAGCTCTATAACACCTGAAAAATAGGGATGTGCATCTTTATATATTCTGAATATTCACACTCTTTACAGGAACTTTTTAGAGCAATAGGCCATCAGGAGTATAGTG > NC_000913/3334564‑3334851 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |