| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 1,440,007 | Δ1 bp | 100% | coding (34/201 nt) | cspA ← | cold shock protein CspA |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 1,440,007 | 0 | C | . | 93.4% | 180.3 / 0.7 | 45 | coding (34/201 nt) | cspA | cold shock protein CspA |
| Reads supporting (aligned to +/- strand): ref base C (0/1); major base . (14/28); minor base T (0/1); total (15/30) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
| Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. | |||||||||||
CGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAA > CP000730/1439872‑1440142 | cgcgGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGtt > 1:135366/1‑141 (MQ=255) gTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCCTTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAAc > 2:456154/1‑141 (MQ=255) cTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCAttt < 1:390686/141‑1 (MQ=255) actactTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTg < 2:433824/141‑1 (MQ=255) ctTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTAcc > 2:74390/1‑141 (MQ=255) cAAACTCATCAGCTTGATCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTg < 2:138993/141‑1 (MQ=255) cTCATCAGCTTGACGTTCTTCTAATGATTTGTACCCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATATAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTc < 1:324671/141‑1 (MQ=255) ggCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACGTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATc < 2:242138/140‑1 (MQ=255) aGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATc < 1:356697/141‑1 (MQ=255) gCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCt < 1:31883/141‑1 (MQ=255) gCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCt > 2:488923/1‑141 (MQ=255) gCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCt < 1:98540/141‑1 (MQ=255) ttGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGa < 1:323865/141‑1 (MQ=255) ttGACCTTCTTCTAATGATTTGTAACCAGCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGa < 1:389971/141‑1 (MQ=255) tGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGaa > 1:546615/1‑141 (MQ=255) aCCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAAc > 1:19380/1‑141 (MQ=255) tcttctAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTcc < 1:275172/141‑1 (MQ=255) tctAATGATTTGTAACCATCTTGGTTAATTGCTGAAACATGTACGTATACGTCATTTTCTACATAAACACTCCGAAAGCCGAATCCTCTTT‑AGCGGTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAg < 1:410809/141‑1 (MQ=255) tGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTaa < 1:476281/141‑1 (MQ=255) gtaacctgctgtgTTCATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTGCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattca < 1:145020/129‑1 (MQ=255) gTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAattcc > 1:234086/1‑140 (MQ=255) ttGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAACATg < 2:234119/141‑1 (MQ=255) tGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTGCCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGc < 1:108018/141‑1 (MQ=255) gAAAAATGTACGAATTCGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTTTTTCATAATCTGAACCCACCAAGACTAAAATTCATTCAATATGCTTATTCGCatat < 1:110697/141‑1 (MQ=255) gAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATAC‑TTTTAAGCGTTAAACCATTTAACTGTACCTTTTTTCATAATCTGATACCTCCAAGACTAAATTTCATTGAATAGTCTAATTGGCatat > 2:544105/1‑141 (MQ=255) tGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCACGACTAAAATTCATTCAATATGCTGATTCGCATATTACaaa < 1:278283/141‑1 (MQ=255) gTACGGATACGTCATTTTCTCCTTCAACTTCGATAAAGCCAAATCCTTTTT‑AGCGTTAAACCATTTGACTGTACCTTGTTTCATTATCTGAACCCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACaaaa > 1:414101/1‑141 (MQ=255) tACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGAGTTAAACACTTTAACTGTACCTTGTTTCATAATCTAAAACCTCCAAGACTTAAATTAATTCAATATGATTATTCGCATATTACaaaaa > 2:182933/1‑141 (MQ=255) tcGTCATTTTCCCTGTCAACTTCGATAAAGTCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTGTCATAATCTGAAACCTCCAATACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATg < 2:378823/140‑1 (MQ=255) gTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTGAGACTATTTAACTGTACCGTGTTTCATAATCTGATTCCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAGAAAGACATGCa < 2:8102/141‑1 (MQ=255) aTTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCGAAt > 2:375663/1‑141 (MQ=255) ttttCCCCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTTAACCCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAAtt < 2:197653/141‑1 (MQ=255) ctcCTTCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTCCAAAAACTACATGCAAATTTCAc > 1:531907/1‑141 (MQ=255) tacTTCAACTTCGAGAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGAATATAAAAAAAAATACATGCAAATTTCACt < 2:444809/139‑1 (MQ=255) cttccactcgcaTAAAGCCCAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCa < 1:25060/130‑1 (MQ=255) ttCAACTTCGATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCaa > 2:52538/1‑141 (MQ=255) tCAACTTCGACAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCaaa < 2:180360/141‑1 (MQ=255) tCAACTTCAATAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTCTTTCATAATCTGAAACCTCCAAGACTAAAATTCATCCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTGCACTCaaa < 2:414533/141‑1 (MQ=255) aTAAAGCCGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTg > 1:62476/1‑141 (MQ=255) aGCCGAATCCTTTTT‑AGGCTTAAACAATTTCACTGTACCTTGTTTCCTAATCTGAAACCTCCAAGACTAAAATTCATTCAACATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAat < 2:375880/141‑1 (MQ=255) cGAATCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATCTTACAAAAAATCCATGCACATTTTACTCAAATATTATTTGCAATATg > 2:114405/1‑141 (MQ=255) cGAAGCCTTTTT‑AGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCACACGTCACGCAAATATTCTTTGCAATATg < 2:542571/141‑1 (MQ=255) aaTCCTTTTT‑AGCGTTAAACCATTTAACTGCACCTTGTTTCATAATCTGAAACCACCAAGACTAAAATTCATTCAATATGCTTATTCGCAGATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGa < 2:414101/141‑1 (MQ=255) accgtttCTGCATTACTCCAATTAACTGTACCTTTTTTCATTATCCGAAACCTTCAAGACTAAAATTCATTCAATATGCTTATTCGCATATCACAAAAAATACATGCAAACCTCACTCAAATATTCTTTGCAATATGGaat < 2:303257/137‑1 (MQ=255) cttttTAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCAAATAATAAAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGaataa < 2:45115/140‑1 (MQ=255) | CGCGGTCGCCTTCAACTACTTCAAACTCAACAGCTTGACCTTCTTCTAATGATTTGTAACCATCTTGGTTAATTGCTGAAAAATGTACGAATACGTCATTTTCTCCTTCAACTTCGATAAAGCCGAATCCTTTTTCAGCGTTAAACCATTTAACTGTACCTTGTTTCATAATCTGAAACCTCCAAGACTAAAATTCATTCAATATGCTTATTCGCATATTACAAAAAATACATGCAAATTTCACTCAAATATTCTTTGCAATATGGAATAA > CP000730/1439872‑1440142 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |