| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 4,390,235 | T→C | 43.0% | I44T (ATC→ACC) | 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 | 4,390,235 | 0 | T | C | 43.0% | 2.9 / 26.2 | 28 | I44T (ATC→ACC) | hfq | global sRNA chaperone; HF‑I, host factor for RNA phage Q beta replication |
| Reads supporting (aligned to +/- strand): ref base T (8/8); new base C (6/6); total (14/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.83e-01 | |||||||||||
ATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGG > CP009273/4390089‑4390361 | ataAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATcc > 2:194560/1‑149 (MQ=255) gagaATGGCTTAGGGGCAATCTTTTCAAGTTCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAaca < 2:116800/149‑1 (MQ=255) gaATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACg < 1:331158/149‑1 (MQ=255) aGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAg > 2:284026/1‑149 (MQ=255) gCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATgg > 1:208134/1‑149 (MQ=255) cAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGt < 1:198340/149‑1 (MQ=255) aaGAGCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCAc < 1:189559/149‑1 (MQ=255) cTGACCGCACTGCGTCGGGAACGTTTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCGAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTAc < 1:126682/149‑1 (MQ=255) aaCGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACtgt > 1:118285/1‑149 (MQ=255) cGTCGGGGACGTGGTCCAGTTTCTATTTCTTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCCGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTATACAAGCACGCGAGTTCTACAGTTGTCCCGtc > 1:201696/1‑149 (MQ=255) ggAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATAGCATAAGTGTATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGcc < 2:171938/149‑1 (MQ=255) gtggTCGAGTGTGTATCTGTTTGGTGAAGGGCAGTGAGCTGCCGGGGCAAATCGAGTCGTTTGATCAGTGCGTGCCCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGCTTTCTACTGTTGTCCCGTCTCGCCCGGtt < 1:96471/149‑1 (MQ=255) tCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTtctc < 1:194560/149‑1 (MQ=255) atttatttGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTaa > 1:190900/1‑149 (MQ=255) atttatttGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACCGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTaa > 1:58699/1‑149 (MQ=255) atgtatttGGTGAATGGTATTAAGCTTCAAGGGCAAATCTAGTCTTTTGATCAGTTCGTGATCCTGTTAAAAAACACGGTCAGCCAGATGGTTTACACGCAAGCGTTATCTACTTTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTaa > 1:342171/4‑149 (MQ=255) tatttGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTaacaa < 2:50408/149‑1 (MQ=255) aaTGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGCTTTATTAT‑GACAGTAACAACGCCGGTgg > 2:331789/1‑149 (MQ=255) tATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTa < 2:233270/149‑1 (MQ=255) aaGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACcag > 2:284294/1‑149 (MQ=255) aaGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTTTCCAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTCCcaa > 1:6382/1‑148 (MQ=255) aaGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCCTGCAC‑GCTACAACGCCGGTGGCGGTACcag > 1:162678/1‑149 (MQ=255) gCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACcagca < 1:284026/149‑1 (MQ=255) ggCAAACCGAGTCTTTTGATCAGTTCGTGACCGTGTTGAAAAGCACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACCAGCAGTAACTAc < 1:201646/149‑1 (MQ=255) gCAAATCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACCAGCAGTAACTAcc > 2:92301/1‑149 (MQ=255) aaaTCGAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACCAGCAGTAACTACcat < 2:74878/149‑1 (MQ=255) cGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCCGTACCAGCAGTAACTACCATCATg < 2:181092/149‑1 (MQ=255) gAGTCTTTTGATCAGTTCGTGACCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATgg > 2:308360/1‑149 (MQ=255) | ATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGTTTCTATTTATTTGGTGAATGGTATTAAGCTGCAAGGGCAAATCGAGTCTTTTGATCAGTTCGTGATCCTGTTGAAAAACACGGTCAGCCAGATGGTTTACAAGCACGCGATTTCTACTGTTGTCCCGTCTCGCCCGGTTTCTCAT‑CACAGTAACAACGCCGGTGGCGGTACCAGCAGTAACTACCATCATGG > CP009273/4390089‑4390361 |
| 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: ‑ |