| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,429,984 | 0 | G | A | 58.3% | 0.0 / 11.8 | 12 | intergenic (‑108/+33) | uspF/ompN | universal stress protein UspF/porin OmpN |
| Reads supporting (aligned to +/- strand): ref base G (5/0); new base A (0/7); total (5/7) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.26e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.93e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TCGTTCTGTTCATAAAACCTCCTGTTTTAG‑TATCCGCATAAAGTGTAACGCCAGATGACACTTTTTG‑TGTAATGACGGAGTTCACATTTTTAATTTAGATCAAAGGAGGAAGAATAAGCAGAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACAATATCATCGGTAGAGATGCCATTGGCAGCGTAGAAGCTGTCATCTTCATCCAACAGGT > NZ_CP009273/1429864‑1430105 | tCGTTCTGTTCAAAAACCCTCCTTTTTTAT‑TACCCGAAAAAAGTTAAACGCCAGATGACTTTTTTTG‑TGTAATGCCGGAGTTCACTTTTTAAATTTAAATAAAAGGAGGAAAAAAAAGCAAAAAAAGCCCGCCATAACa < 2:426000/139‑1 (MQ=255) ttCATAAAACCTCCTGTTTTAG‑TATCCGCATAAAGTGTAACGCCAGATGACACTTTTTG‑TGTAATGACGGAGTTCACATTTTTAATTTAGATCAAAGGAGGAAGAATAAGCAGAAAAAGCCCGCCATAACAGCGGGCag > 2:319931/1‑139 (MQ=255) gtGTTTAAG‑TAGCCGAAAAAATTGTAACACAAAATGACATTTTTGG‑TGAAATGACGGAGTCCATATTTTTAATTGAGAAAAAAGGAGGAAAAAAAAGAAAAAAACCCCCGCCATAACAGCGGGCAGGAGGATTTAGa < 2:101669/136‑1 (MQ=255) ctGTTTTAG‑TATCCGCATAAAGTGTAACGCCAGATGACACTTTTTG‑TGTAATGACGGAGTTCACATTTTTAATTTAGATCAAAGGAGGAAGAATAAGCAGAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAAc > 1:247802/1‑139 (MQ=255) ctttttAGTTACCCGAAAAAAGTGTAACGCCGGAT‑ACCTTTTTTGATGTAATGACGAGGTTCACTTTTTAAATTTAGAGGAAAGGAGAAAGAATAAGAAAAAAACCCCCGCCATAACAGCGGGCAGGAGGATTTAGa < 2:252078/135‑1 (MQ=255) tttAG‑TACCCCCAAAAATTAAAACGCCAAATGACTTTTTTTG‑TGTAATGACGGATTTCACATTTTTAATTTAGAACAAAGGAGGAAGAATAAGCAAAAAACGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGa < 2:247802/138‑1 (MQ=255) tAACGCCAGATGACATTTTTTG‑TTTAATGACGGATTTCAAATTTTAAATTTAGATAAAAGGAGGAAAAAAAAGAAAAAAAACCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACa < 1:535501/139‑1 (MQ=255) gATGACACTTTTTG‑TGTAATGACGGAGTTCACATTTTTAATTTAGATCAAAGGAGGAAGAATAAGCAGAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACAATatcatc > 1:184704/1‑139 (MQ=255) tg‑tgTAATGACGGAGTTCACATTTTTAATTTAGATCAAAGGAGGAAGAATAAGCAGAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACAATATCATCGGTAGAGATGc > 1:581160/1‑138 (MQ=255) aTGACGGAGTTCACATTTTTAATTTAGATCAAAGGAGGAAGAATAAGCAGAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACAATATCATCGGTAGAGATGCCATTgg > 1:319017/1‑138 (MQ=255) gaaaaaaGGAGAAAAAAAAAGAAAAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACAATATCATCGGTAGAGATGCCATTGGCAGCGTAGAAGCTGTCATCTTCATCCa < 2:581160/135‑1 (MQ=255) aggaggAAGAAAAAGAAAAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACAATATCATCGGTAGAGATGCCATTGGCAGCGTAGAAGCTGTCATCTTCATCCAACAGGt < 1:153421/139‑1 (MQ=255) | TCGTTCTGTTCATAAAACCTCCTGTTTTAG‑TATCCGCATAAAGTGTAACGCCAGATGACACTTTTTG‑TGTAATGACGGAGTTCACATTTTTAATTTAGATCAAAGGAGGAAGAATAAGCAGAAAAAGCCCGCCATAACAGCGGGCAGGAGGATTTAGAACTGATAAACCAGACCTAAAGCGACAATATCATCGGTAGAGATGCCATTGGCAGCGTAGAAGCTGTCATCTTCATCCAACAGGT > NZ_CP009273/1429864‑1430105 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |