| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 1,190,144 | G→A | P102S (CCG→TCG) | phoP ← | response regulator in two‑component regulatory system with PhoQ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,190,144 | 0 | G | A | 90.0% | 150.9 / 8.8 | 61 | P102S (CCG→TCG) | phoP | response regulator in two‑component regulatory system with PhoQ |
| Reads supporting (aligned to +/- strand): ref base G (3/3); new base A (29/25); total (32/29) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.43e-01 | |||||||||||
GTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCT > NC_000913/1190013‑1190278 | gTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTc < 2:277817/139‑1 (MQ=255) cATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTGTTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTcac > 1:628495/1‑139 (MQ=255) aaTAGACAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATaa > 1:735881/1‑139 (MQ=255) aTAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACGGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAat > 2:224720/1‑139 (MQ=255) aTAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAatcatc > 1:828505/1‑139 (MQ=255) ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCa > 1:193028/1‑139 (MQ=255) ttCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCa > 2:492387/1‑139 (MQ=255) aCGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCg > 2:1072969/1‑139 (MQ=255) ggCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGc > 1:630517/1‑139 (MQ=255) ggCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGc > 2:475310/1‑139 (MQ=255) gCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTGTTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCa < 2:628495/139‑1 (MQ=255) agagagaTCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTa < 2:841675/112‑1 (MQ=255) agagagaTCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTa > 1:841675/1‑112 (MQ=255) agagaTCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAg > 2:315654/1‑111 (MQ=255) agagaTCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAg < 1:315654/111‑1 (MQ=255) aaCGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGt > 2:816949/1‑139 (MQ=255) ggggAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGc > 1:954614/1‑139 (MQ=255) gggAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGcc > 1:123007/1‑139 (MQ=255) cGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCg > 2:824058/1‑106 (MQ=255) cGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCg < 1:824058/106‑1 (MQ=255) aaTGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCa < 1:475310/139‑1 (MQ=255) aCCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACggg < 2:954614/139‑1 (MQ=255) aCCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACggg < 1:1072969/139‑1 (MQ=255) tgtgAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCgg > 1:1025651/1‑139 (MQ=255) ttgAAGCCATACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCACCACCTCTTCAATATGAAACGCTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGggtggt < 2:193028/138‑1 (MQ=255) ccAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTcc > 2:40479/1‑113 (MQ=255) ccAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTcc < 1:40479/113‑1 (MQ=255) cAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATAcc < 2:14973/139‑1 (MQ=255) aGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCa > 2:39468/1‑139 (MQ=255) aCCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa < 2:925269/64‑1 (MQ=255) aCCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTa > 1:925269/1‑64 (MQ=255) ccGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACggg > 2:335204/1‑124 (MQ=255) ccGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACggg < 1:335204/124‑1 (MQ=255) gCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATc < 1:39468/139‑1 (MQ=255) tATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAg > 1:192149/1‑60 (MQ=255) tATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAg < 2:192149/60‑1 (MQ=255) cgccgcATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTg < 2:1025651/139‑1 (MQ=255) cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCa > 2:76072/1‑99 (MQ=255) cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCa < 1:76072/99‑1 (MQ=255) cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACgg > 1:951507/1‑109 (MQ=255) cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACgg < 2:951507/109‑1 (MQ=255) cATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACa > 1:731306/1‑139 (MQ=255) aTTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACAt < 1:224720/139‑1 (MQ=255) ttAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATc < 2:792272/139‑1 (MQ=255) tGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTg > 2:900260/1‑139 (MQ=255) aTTCGCGCCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGcc < 1:492387/139‑1 (MQ=255) cgcCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATc > 1:206123/1‑109 (MQ=255) cgcCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATc < 2:206123/109‑1 (MQ=255) gcCATCACCTCTTCAATATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAgcggc < 1:900260/139‑1 (MQ=255) ctTCAATATGAAACGATTTAGTCACATAATCATCAGCACCg > 2:616851/1‑41 (MQ=255) ctTCAATATGAAACGATTTAGTCACATAATCATCAGCACCg < 1:616851/41‑1 (MQ=255) aaTATGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGAAAGa < 2:630517/139‑1 (MQ=255) tGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACggg < 1:229600/73‑1 (MQ=255) tGAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACggg > 2:229600/1‑73 (MQ=255) gAAACGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTc < 2:735881/139‑1 (MQ=255) aaCGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCt > 2:712674/1‑139 (MQ=255) aaCGATTTAGTCACATAATCATCAGCACCGGCACTTAATACtt < 1:190807/43‑1 (MQ=255) aaCGATTTAGTCACATAATCATCAGCACCGGCACTTAATACtt > 2:190807/1‑43 (MQ=255) aaCGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCg > 2:694491/1‑45 (MQ=255) aaCGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCg < 1:694491/45‑1 (MQ=255) aaCGATTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCt > 2:952087/1‑139 (MQ=255) | GTCATTAATAGATAATTCACGGCGAGAGAGATCAACCTGAAACGGGGGGAGCGAAATGACCTGTGAAGCCAGACCGCTATTACGCCGCATTAATGCCTGCATTCGCGCCATCACCTCTTCAATATGAAACGGTTTAGTCACATAATCATCAGCACCGGCACTTAATACTTCGACTTTGTCCTGCCAGCTTTCACGGGCGGTTAATACCAGAATCGGCAGTGAAACATCGTTGCTACGCCAGCGGCGAATCAGTGACAGACCGTCCT > NC_000913/1190013‑1190278 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |