| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 4,390,286 | C→A | 81.4% | T61N (ACT→AAT) | hfq → | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 4,390,286 | 0 | C | A | 81.4% | 62.8 / 14.3 | 38 | T61N (ACT→AAT) | hfq | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| Reads supporting (aligned to +/- strand): ref base C (5/2); new base A (15/16); total (20/18) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.10e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.94e-01 | |||||||||||
GGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTT > CP009273/4390155‑4390430 | ggAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCGAATGTTGTCCCGt > 1:364557/1‑143 (MQ=255) ttCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTtct < 2:248483/149‑1 (MQ=255) ttCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTtct < 2:353327/149‑1 (MQ=255) tCCATTTTCTATGTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTGACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCgg < 1:458582/143‑1 (MQ=255) ccAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCtca > 2:513339/1‑149 (MQ=255) atttatttGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTCCAAGCAAGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCtcatca > 1:428392/1‑143 (MQ=255) tgtGGTGAATGGTATTAAGGTGGCAGGGCAAATCGAGGCTTTGGATCAGTTCGTGATCCTGTTGAAAAACACGGTCATCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTa < 1:463064/141‑1 (MQ=255) aagggTATTAGGCTGGGAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCCGGTGAGAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGc < 1:202002/140‑1 (MQ=255) gCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACcagca < 2:269208/149‑1 (MQ=255) tGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTAcc < 1:303371/143‑1 (MQ=255) cAAGGGCAAATCGAGTCTTTTGATTAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACcag < 1:211912/143‑1 (MQ=255) cAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACcac > 1:115201/1‑142 (MQ=255) ggCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGt > 1:211262/1‑143 (MQ=255) gAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTCCCATCATga > 2:557453/1‑148 (MQ=255) gTCTTTTGATCATTTTGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTa < 2:398295/149‑1 (MQ=255) gATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTag < 1:419355/143‑1 (MQ=255) tCAGTTCGTGATCCTGTTGAAAAACACGGTCAGGCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTTTCGCCCTGTTTCTCATCACA‑GTAACAACGCCGGTTGCGGTACCAGCAGTAACTACCATCATGGTGGCAgcgcgg > 2:74995/1‑148 (MQ=255) cGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCA‑CATAGGTTACATTGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATa > 2:464370/1‑149 (MQ=255) cGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAgcgcgc > 1:406399/1‑143 (MQ=255) tGATCCTGTTGAAACACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCGCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACt < 2:100381/149‑1 (MQ=255) aTCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGaa > 1:25873/1‑143 (MQ=255) cTGTTGAAACATCCGGGTAGTCAGATGGTTTACACTCACGCGATTTCTAATGTTTTCCCGCCTCGCCCGGTTTCTCAGCACA‑GTAACAACGCCGGTTGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCcgc < 2:294371/149‑1 (MQ=255) ggtGAAAGACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACtt < 1:461450/141‑1 (MQ=255) ttGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTc > 1:213950/1‑143 (MQ=255) aaaaaCACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACa < 2:29541/149‑1 (MQ=255) aaaaaCACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGGACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTCCCGCCCAACa > 2:569782/1‑149 (MQ=255) aaaCACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCAGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAAGTACCATCAGGGTAGCAGCGCGCAGAATACTTCCgcgc > 1:120651/1‑143 (MQ=255) acacGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCaa > 1:397210/1‑143 (MQ=255) gCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACCGCgaagac > 2:296849/1‑148 (MQ=255) ccAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGaaa > 2:111482/1‑149 (MQ=255) ccAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCg > 1:170297/1‑143 (MQ=255) ccAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGaaa > 2:9290/1‑149 (MQ=255) ccAGATGGTTTACAAGCACGCGATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGaaa > 2:97043/1‑149 (MQ=255) tGGTTTACAAGCACGCGATTTCTAATTTTGGCACGTCTCGCCCGGTTTCTCATCACA‑TTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAATAGGACAGCGAAGAAACCGaa < 2:611480/149‑1 (MQ=255) cgCACGCGATTTCTAATGTTGCCGCGGCTCGGCCGGTTTCTCATCACA‑GTAACAACGCCGTGAGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATaa < 1:188522/142‑1 (MQ=255) cgATTTCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACCGGACCGCCAAGAAACCGAATAAGGCTTc > 1:531391/1‑143 (MQ=255) tttCTAATGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGttt < 2:168765/149‑1 (MQ=255) tCTAATGTTTTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGttttt < 2:238659/149‑1 (MQ=255) | GGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCATCACA‑GTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGGTAGCAGCGCGCAGAATACTTCCGCGCAACAGGACAGCGAAGAAACCGAATAAGGTTTCGGGCTGTTTTT > CP009273/4390155‑4390430 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |