| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP009273 | 3,412,459 | +A | pseudogene (59/66 nt) | yhdW → | pseudogene, amino‑acid transporter homology;putative transport; Not classified; putative periplasmic binding transport protein; periplasmic‑binding component of ABC superfamily |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,412,456 | 1 | . | A | 93.8% | 144.3 / 4.2 | 49 | pseudogene (56/66 nt) | yhdW | pseudogene, amino‑acid transporter homology;putative transport; Not classified; putative periplasmic binding transport protein; periplasmic‑binding component of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base . (2/1); new base A (27/18); total (30/19) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01 | |||||||||||
TACTTTTGCTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGC‑AAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAGTTTTCAGGTATTGAT > CP009273/3412311‑3412582 | tactTTTGCTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTGGc > 1:399077/1‑146 (MQ=255) ttttGCTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATAATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTCGCCGTTGC‑acaagc > 2:303994/1‑144 (MQ=255) tttGCTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGC‑aaaatca > 2:538353/1‑145 (MQ=255) tataAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATGGCCACGCTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCgct > 2:298013/1‑149 (MQ=255) aaGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCgctgct < 2:869840/149‑1 (MQ=255) ggCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGCCCCGAc > 2:848621/1‑149 (MQ=255) ggCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAAGTTTCGCCTCCCAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGAc > 2:729208/1‑149 (MQ=255) cagacagGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGc > 1:651386/1‑146 (MQ=255) agGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCAAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGAt > 1:51848/1‑146 (MQ=255) gTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGc > 1:969494/1‑146 (MQ=255) aaaGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGC‑AAAGTCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCa > 2:642004/1‑149 (MQ=255) aaGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTTGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGtt < 1:512511/146‑1 (MQ=255) aGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTc > 1:740717/1‑146 (MQ=255) tttCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGaaaaaa < 2:739624/149‑1 (MQ=255) ccAAACGTCCTATAACGATAATTTTCACCTCTCTGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGC‑AAATTCAAGCGCTGCTGGCGCCACGCTTGATGCCGGTCTGAAAATAg > 1:578647/1‑146 (MQ=255) tCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGC‑AAACTCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTtgt < 1:501296/146‑1 (MQ=255) aaCGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATg > 1:1031901/1‑146 (MQ=255) aCGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCggg > 2:735589/1‑149 (MQ=255) aCGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCggg > 2:533035/1‑149 (MQ=255) gATAATTTTAGCCTCACAGGAAGAATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGGGCTGCTGGCGCGACGGTTGATGCCGTTCAGAAAGAAGGTTTTGGGCAATGCgg > 1:554610/1‑146 (MQ=255) aTAATTTTCGCCTCACAGGAGGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATc > 2:222237/1‑149 (MQ=255) aTAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCggg > 1:860874/1‑146 (MQ=255) aaTTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGAt > 1:154221/1‑146 (MQ=255) ttttCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTg < 2:636597/149‑1 (MQ=255) ttCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGAt < 2:622965/149‑1 (MQ=255) tCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGACGTCATGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATg < 2:561474/149‑1 (MQ=255) gCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGa < 2:589327/149‑1 (MQ=255) ccgcacaGGAAGCATTATGAAAAAGATGATGGTGGCCACACTGGCTGCGGCCCACGTGCGGCGTGCCGTTGCAAAA‑TCGGGCGCTGCTGGCGCGACGCTTGATGCCGGTCAGAAAAAAAGTTTTGTGCAATGCGGGATCAGTGATg < 1:604645/143‑1 (MQ=255) ccTCACGGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATg < 1:497819/146‑1 (MQ=255) ccTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATg < 1:1020238/146‑1 (MQ=255) ccTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATg > 1:151486/1‑146 (MQ=255) caGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTa > 1:669803/1‑146 (MQ=255) aGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTg < 2:102708/149‑1 (MQ=255) ggCATTATGAAAAAGGTGGTGATAGCCACCCTGGTGGCCGCAAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCGGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAGTGCGGGATCAGTGATGGATTACCTgg < 1:131478/145‑1 (MQ=255) gCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTggg > 1:988069/1‑146 (MQ=255) ttATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTctct > 2:908956/1‑149 (MQ=255) gAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCGAGA‑TCGGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATg > 2:509459/1‑149 (MQ=255) aaaaaGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCGGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGAAGGATTACCTGGGTTCTCTTa > 1:422890/1‑146 (MQ=255) aaaaaGATGATGATAGCCACACTGGCGGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGc < 2:711193/149‑1 (MQ=255) aaaaaGAGGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGc < 2:568667/149‑1 (MQ=255) aaGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGc < 1:441545/146‑1 (MQ=255) gatgatAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGGGATGGATTACCTGGGTTCTCTTATGCCGATGCta > 2:292845/1‑148 (MQ=255) gatgatAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGGGATGGAATACCTGGGTTCTCTTATGCCGATg > 1:317566/1‑146 (MQ=255) ccACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACggg > 1:333242/1‑145 (MQ=255) ccACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGt > 1:943166/1‑146 (MQ=255) ccACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAg > 2:579054/1‑149 (MQ=255) ccACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTCCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGt > 1:52702/1‑146 (MQ=255) cTGGCTGCCGCCAGCTTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAGtt < 1:791637/146‑1 (MQ=255) tGGCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAGTTTTCa < 2:602235/149‑1 (MQ=255) gCTGCCGCCAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCATTCAGAAAAAAGGTTTTGTGCAATGCGGGAGCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAGTTTTCAgg > 2:607876/1‑149 (MQ=255) cgccAGTGTGCTGCTTGCCGTCGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAGTTTTCAGGTATTg < 2:696025/149‑1 (MQ=255) ccAGCGTGCTGCTTGCCGTTGCAAAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAGTTTTCAGGTATTGAt > 2:204747/1‑149 (MQ=255) | TACTTTTGCTTATAAGAGGATGGCCACAGACAGGTAAAAGACGTTTCCCAAACGTCCTATAACGATAATTTTCGCCTCACAGGAAGCATTATGAAAAAGATGATGATAGCCACACTGGCTGCCGCCAGCGTGCTGCTTGCCGTTGC‑AAA‑TCAGGCGCTGCTGGCGCGACGCTTGATGCCGTTCAGAAAAAAGGTTTTGTGCAATGCGGGATCAGTGATGGATTACCTGGGTTCTCTTATGCCGATGCTGACGGTAAGTTTTCAGGTATTGAT > CP009273/3412311‑3412582 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |