| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,199,803 | 0 | T | A | 54.5% | 12.3 / 31.1 | 22 | intergenic (‑188/‑19) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| Reads supporting (aligned to +/- strand): ref base T (1/9); new base A (12/0); total (13/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.01e-05 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.83e-05 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAA > NZ_CP009273/3199731‑3199880 | tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGG‑GGATTTTTTCAGACAAAAACAAAAAAAGGAGGTgg > 2:3279/1‑89 (MQ=255)tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGG‑GAAATTTTTCAAAAAAAAAAAAAAAAAGGAGGTGc > 1:812241/1‑90 (MQ=255) ttCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGAAAAAAACAAAAAAAGGAGGTGCCa > 2:129387/1‑90 (MQ=255) aCGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatga < 1:174615/90‑1 (MQ=255) gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGAAAAAAAAAAAAAAAGGAGGTGGCatgttta > 2:911767/1‑86 (MQ=255) ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAAAGGAGGTGGCATTATGAgg > 1:178165/1‑89 (MQ=255) ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGc < 1:3264/90‑1 (MQ=255) ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGtaata < 1:479025/90‑1 (MQ=255) ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGtaata < 2:812241/90‑1 (MQ=255) ataAAACCACATTTTTAGTGGTAGTTTGTGGCGGG‑GAAATTTTTTAAAAAAAAAAAAAAAAAGGGGTTTGCATGATGGGGgaaagaaaaa > 1:883234/1‑88 (MQ=255) cacaTTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACa < 2:421142/90‑1 (MQ=255) acaTTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAACAAAAAATGGAGTTGCCATGATGAGCGGAAGGAATAAGCAAAAg > 2:254482/1‑90 (MQ=255) acaTTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAAAGGAGTTGCCATGATGAGGGGAAGGAATAAGCAACaa > 2:403124/1‑89 (MQ=255) tttttAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCa < 1:556908/90‑1 (MQ=255) tttttAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCa < 1:826901/90‑1 (MQ=255) gTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAAt < 2:183538/90‑1 (MQ=255) ggTAGTTTGTGGCGGTGGAATTTTTCC‑GACAAAAACAAAAAATGGGGGTGGCCTGGTGGGGGGAAGTAATAAAGAAAAAGCAGGGAaaaa > 1:79632/1‑90 (MQ=255) ggTAGTTTGTGGCGGT‑GAATTTTTTCAGACAAAAAAAAAAAATGGAGGTGCCATGATGAGGGAAAATAAAAAAAAAAAAGCAGTGAaaaa > 1:292364/1‑90 (MQ=255) ggTAGTTTGTGGCGGG‑GGAATTTTTTAGACAAAAACAAAAAATGGGGGTGGCTTGGTGGGGGGAAGGAATAAACAAAAGACAGGGAaaaa > 1:894341/1‑90 (MQ=255) tAGTTTGTGGCGGT‑GAAATTTTTCAAACAAAAAAAAAAAATGGGGGTGCCATGATGAGCGAAAAAAAAAAACAAAAAGCAGGGAaaaaat > 2:665354/1‑88 (MQ=255) cGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt < 1:403124/90‑1 (MQ=255) tttCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTaa > 2:720289/1‑90 (MQ=255) | TATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGT‑GAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAA > NZ_CP009273/3199731‑3199880 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |