| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,199,794 | 0 | C | T | 50.0% | 11.5 / 24.8 | 32 | intergenic (‑179/‑28) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| Reads supporting (aligned to +/- strand): ref base C (0/16); new base T (16/0); total (16/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.33e-09 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGA > NZ_CP009273/3199657‑3199925 | aaaaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTcc > 2:287758/1‑139 (MQ=255) aaaCATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAATTTGTGGCGGTGAATTTTTCCa < 1:183888/139‑1 (MQ=255) cATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑Ac < 2:176317/139‑1 (MQ=255) cccTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAaaa‑aaaaa > 2:685554/1‑138 (MQ=255) tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAcaaaa‑acaaaaaat > 2:81071/1‑137 (MQ=255) tGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAT‑AAAAAAACt > 1:837670/1‑139 (MQ=255) ctctGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCCGACAAAA‑AAAAAAAATgg > 2:225640/1‑139 (MQ=255) gcAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGcc < 1:225640/139‑1 (MQ=255) atatTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAA‑AAAAAAACTGGAGTTGCCat > 1:586742/1‑138 (MQ=255) attcTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAg < 1:685554/138‑1 (MQ=255) cTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGa < 1:287758/138‑1 (MQ=255) ttttCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCGCATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAAT‑AAAAAAAATGGAGTTGCCATGATGAGCGAAAgg > 1:618957/1‑137 (MQ=255) ttCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg < 2:244171/139‑1 (MQ=255) atatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAA‑ACAAAAACTGGAGTTGCCATGGTGAGCGAAAGGAAAAAACAAAAGGCAGGGAATAAAGTGACa > 1:497311/1‑137 (MQ=255) atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAT‑ACAAAAAATGGAGTTTCCATGATGAGCGAAAGTAATAAAAAACAAGCAAGGAAAAAGATGACa > 2:824344/1‑135 (MQ=255) atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGACAAAT‑AAAAAAAATGGAGGTGGCAAGATGAGGGGAAGGAATAAGAAAAAAGCAGGGAATAAATTGACagag > 2:155444/1‑138 (MQ=255) atTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAGAAAAAA‑ACAAAAAATGGAGTTGTCATGATGAGCGGAAGTAATAAACAAAAAGGAGTGAATAAATTGACa > 1:164815/1‑135 (MQ=255) ttCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAgaga < 1:155444/138‑1 (MQ=255) tGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAAAAAAA‑AAAAAAACAAGAGGTGGCATGATGAGGGAAAGAAAAAAAAAACAAGCAAGGAAAAAGGTGACAGAGATTGTAGc > 2:555157/1‑138 (MQ=255) cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTTCAAACAAAA‑ACAAAAAATGGAGTTGGCATGGGGGGGGAAAGTAATAAACAACAAGGCGGGAATAAGTTTACAGAGATTGTCGcgcac > 2:419241/1‑135 (MQ=255) tttAGTGGTAGTTTGTGGCGGTGAAATTTTTCAGAACAAA‑ACAAAAAATGGAGTTGGCCTGATGAGGGGAAGGAAAAAGAAAAAAGCAGTGAATAAATTGAAAGAGATTGTCGCGAAATTTACCGCCCTGATTTCttac > 2:655398/1‑136 (MQ=255) aGTGGTAGTTTGTGGCGGTGCAGTTTTTCAGACAAATAACAAAAACTGCGATTG‑CGTGGTGAGGGAAAGTAATAAGCAACAGGCAGGGAATAAGATGACCGACGTTGTCGCCAAATTTTCCGCCGTGATTTTTAcccc > 1:411911/1‑137 (MQ=255) gTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAATTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGaa < 1:655398/139‑1 (MQ=255) tGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAAt < 1:555157/139‑1 (MQ=255) gTAGTTTGTGGCGGTGAATTTTTTCAGACAAAT‑ACAAAAAATGGGGGTGCCATGATGAGCGGAAGTAAAAAAAAAAAGGCAGGGAATAAGGTGACAGAGATTGTCGCTCAATTTACCGCCATGATTTCTACCCGAATGc > 2:681384/1‑139 (MQ=255) gTAGTTTGTGGCGGTGAATTTTTTCAGAAAAAA‑ACAAAAAATGGAGTTTGCATGGTGAGCGGAAGGAATAAGCAACCAGCAGGGAATAAAATGACAGAGATTTGTGCTAAATTTACCGCCCTGATTTCTACCCGAATGc > 2:575780/1‑139 (MQ=255) gtgGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCtgatg < 2:837670/138‑1 (MQ=255) gCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACgt < 1:419241/139‑1 (MQ=255) cgatGAATTTGCCCAGAAAAAA‑CCAAAACGGGGTGTAGCAAGGATGAGCAAAGGTAATAAGAAAGGGGAAGTGAAAAGGTTACCAGAAATTGTCGCTAGCTTTCCCGCCATGATTTCTCCCCGAATGCCTGATGACgtg < 2:411911/136‑1 (MQ=255) aaTTTTTCCAGACAAAT‑CAAAAAACGGGAGTTGCCAGGAGGAGCGAAAGAAATAAGAAACCGGAGGTGAATAGGTTGAAAGAGATTGTCGATAATTTTACCGCCATGATTGCTACCCGAATGCCTGATGACGTGGTGGa < 2:838953/139‑1 (MQ=255) aaTTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCATTGAATAAGTTGACAGAGATTGTCGCTACCTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa < 2:358315/139‑1 (MQ=255) aaTTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGAAACGGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa < 1:575780/139‑1 (MQ=255) aaTTTTTCAAGAAAAAT‑AAAAAAACGGGAGTTGCCATGATGAGCGAAAGAAATAAGCAACAGGCAGGAAAAAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGa < 2:358280/139‑1 (MQ=255) | AAAACATTGCCATTCCCTGCTCTGGCGCAATATTCATTCTTATTTTCGCGTTGATTCACGAACTGTTAATTACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAAT‑ACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTCTACCCGAATGCCTGATGACGTGGTGGA > NZ_CP009273/3199657‑3199925 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |