| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_vch_tpiA | 4,296,090 | 0 | C | T | 21.8% | 86.1 / 24.4 | 56 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| Reads supporting (aligned to +/- strand): ref base C (24/19); new base T (6/6); total (31/25) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.53e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.94e-01 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGC > NC_000913_3_vch_tpiA/4295942‑4296236 | gTCTGATAAGGCGTGTATGCCGTATCCGACGTCAATGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAAc < 2:158494/149‑1 (MQ=11) gATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGAGACGCTTAACGCGTCTTCCCGGTCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCt > 1:112432/1‑149 (MQ=11) ggCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCTTGATTTTGTAGGTCGTATACGGCGTTTACGCCGCATCCGACGTCAACGCCTGATGc > 2:125569/1‑149 (MQ=255) ccGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCgg > 2:511748/1‑140 (MQ=17) ccGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGa < 1:511748/141‑1 (MQ=32) cGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcg > 2:149902/1‑149 (MQ=35) gCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGCATAAGACGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcgc > 2:478077/1‑149 (MQ=25) cGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGCCAGCGAAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGCTGCGACGCTTGCCGCGTCtt > 1:383481/1‑149 (MQ=255) cGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCtt < 1:149902/149‑1 (MQ=39) aCATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCAGCGTCTTAt > 2:552671/1‑149 (MQ=25) cAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCCgg > 2:125674/1‑149 (MQ=21) aaCGCCTGATGCGACGCTTAACGCGTCTTATCAGCCCTACGCCAGACAGCGCAATCGCCTGATCTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGc < 1:697900/149‑1 (MQ=255) aCGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCCTGAGCCATCAGGTCCTGATGCGACGCTTGCCGCGTCTTATCAGGcc > 1:538747/1‑149 (MQ=11) cGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCt > 2:309970/1‑149 (MQ=25) gCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTa < 1:626196/149‑1 (MQ=21) cTGATTCGACGCTTAACTCGTCGTTTTAGGCCTAGGCCAGACAGCGCAATAGCCTGATTTA‑GCGGGATTGTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACGTCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTatc > 2:693861/1‑147 (MQ=11) cTGATGCGACGCTTGACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGcc < 1:183498/114‑1 (MQ=12) cTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTGTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATGAATGCCTGCTGCGACGCTGGCCGCGTCTTCTCAGGCCtgtg > 2:357896/1‑146 (MQ=11) tGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAg > 2:603442/1‑149 (MQ=37) gcttgccgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAgcg < 1:491259/143‑1 (MQ=21) gCTTAACGCGTCCTATCCGGCCTCCGCCATACAGCGCTCTCGAC‑AATAAACTCTGGATTTTGTAGGTCGGATAAGGCTTGTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAgcg < 1:572304/149‑1 (MQ=2) tCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcgc > 2:216076/1‑112 (MQ=39) tCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCcgc < 1:216076/112‑1 (MQ=39) tCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTg > 2:626196/1‑149 (MQ=37) tCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTa > 1:727695/1‑149 (MQ=38) tCAGGCCTACGCCAGACAGAGAAATAGCCTGATTCA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGCCGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTa < 2:524356/149‑1 (MQ=255) cAGGGCTAAGCCGGGCAGCGAAATTGTGGGATTTA‑GCGTGATTTTGTAGGTCGGGTAAGGGGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAg < 2:37894/149‑1 (MQ=11) aGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGCCAGCGCAATAGCCTGATTTAGc > 1:50095/1‑149 (MQ=38) aGGCCTACGCCAGACAGAGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGc > 1:324051/1‑149 (MQ=255) gCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGAt > 1:429132/1‑83 (MQ=25) gCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGAt < 2:429132/83‑1 (MQ=25) aGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTa < 1:478077/149‑1 (MQ=38) aCAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGcc < 2:55269/74‑1 (MQ=25) aGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACGTCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTc < 1:770129/149‑1 (MQ=38) tA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGc < 1:489828/149‑1 (MQ=39) tGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGGCATCAACGCCTGATGCGACGCTTGCCCCGTCTGATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCAt > 1:346816/1‑149 (MQ=255) gATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATc > 2:340263/1‑149 (MQ=39) tttGTAGGGCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGa < 1:100302/149‑1 (MQ=38) ttGTAGGTCGGATAAGGCGTTTACGCCGCATCCGAAATCGACGTTTGATGCGACGCTTGCCGCGTCTTATCAGGCCGACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGAc < 1:610362/149‑1 (MQ=11) tGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATg < 1:553059/49‑1 (MQ=255) tGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCATTAGCCTGATTTAGCTTGATTTTGTAGGCCGGATAAGGCGTTTAAGCCGCATCCGCCa > 2:61729/1‑149 (MQ=11) ggTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGCCAGCGCAATAGCCTGATTTCGCGTGATTTTCTCGATCGGATAAGTCGTTTATGCCCCATCCGACCTCaa > 2:11555/1‑149 (MQ=14) ggcGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAAc < 1:231976/147‑1 (MQ=38) tCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTa > 2:513813/1‑71 (MQ=19) tCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGc < 2:631263/49‑1 (MQ=255) tCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTa < 1:513813/71‑1 (MQ=255) ggATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCACCGcc > 1:480908/1‑149 (MQ=255) aTAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTATGTCGGATAAGGCGTTTCTGCCGCATCCGACATCAACGCCTg > 2:619927/1‑149 (MQ=255) agggCGTTTCCGCCCCGCCAGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGAt < 2:633964/147‑1 (MQ=11) ggCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGCTTTAGCGTGATTTTGTAGGTCGGATAATGCGTTTATGCCGCATCCGACATCTAGCCCtgctgc > 2:304142/1‑149 (MQ=14) gCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCTAGCCAGCGCATTAGCCTGCTTTAGCGTGACTTTGTAGGTCGGATAAGGCGTTTATACCGCAAGCGGCGTCAACGCCGCATGCg > 2:151708/1‑149 (MQ=14) gccgcATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTCTCAGGCCTACGCCAGACACCGCAATAGCCTGATTTAGCGTGATTTTGTCGGTCGGATAAGGCGTTTATGCCGCATCCGACATCGACGCCTGCTGCGGAGCTTac > 1:165697/1‑148 (MQ=11) ccgcATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGc < 1:181232/82‑1 (MQ=40) ccgcATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGc > 2:181232/1‑82 (MQ=40) tCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATc < 1:125588/41‑1 (MQ=40) tCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATc > 2:125588/1‑41 (MQ=40) aaCGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGc < 1:552975/149‑1 (MQ=32) | GTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTA‑GCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAACGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGC > NC_000913_3_vch_tpiA/4295942‑4296236 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |