Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NZ_CP009273 | 3,659,062 | 0 | C | A | 66.7% | ‑4.7 / 11.9 | 18 | A37S (GCG→TCG) | gadX | acid resistance transcriptional activator GadX |
Reads supporting (aligned to +/- strand): ref base C (4/2); new base A (0/12); total (4/14) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 4.90e-03 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.86e-02 | |||||||||||
Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
Rejected as consensus: Frequency below/above cutoff threshold. |
ATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGC > NZ_CP009273/3658977‑3659140 | aTCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaaa > 1:48408/1‑90 (MQ=255) aaatGAAAGCGTGCCCCTTGACACAAATAAAAAATTTTCAACACACTTATCTACTCAAATTTGGCTTGCACCCGAAAAAACCAGGTCAcc < 1:96927/89‑1 (MQ=255) ttccccTTAACAAAAATAAAAATTTTCCAACCCCCTTATCTTCTAAATTTTGGCTTCCACCCGAAAAACCCAGGCCACCGCCATTAAAAt < 2:352719/87‑1 (MQ=255) cccTTGACACAAATAAAAAATTTCCAACACACTTATCTCCTCGATTTTGGCTTGCATCCGCAAAACCCAGGTCACCGCCATTAAAATAGc < 1:18578/90‑1 (MQ=255) cccTTAACACAAATAAAAAATTTCCAACACATTTATCTCCTCGATTTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGc < 2:39772/90‑1 (MQ=255) cacGAATACAAAATTTTCAACCCATTTATCTCCTCAATTTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTc < 1:63664/90‑1 (MQ=255) gAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCAcc > 1:10101/1‑90 (MQ=255) aTACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGa > 2:11100/1‑80 (MQ=255) aTACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGAAAAAACCAGGTCACCGCCATTAAAATAGCGa < 1:11100/80‑1 (MQ=255) taaaCACTTTTATTTACTAAATTTTGGCTTCCACCCGAAAAACCCGGGCCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:48408/88‑1 (MQ=255) tCAACACCTTTATCTACTCAAATTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 1:131979/90‑1 (MQ=255) cccTTATCTACTAGATTTTGTTTTCCACCCAAAAAAACCGGCTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAata < 2:233428/88‑1 (MQ=255) cGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCtt > 1:244477/1‑90 (MQ=255) tGGTTTGCACCCAAAAAAACCGGGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 2:214675/90‑1 (MQ=255) tGGCTTCCACCCAAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 1:257262/90‑1 (MQ=255) tGGCTTCCACCCAAAAAAACCAGGTCCCCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 2:44965/90‑1 (MQ=255) tGGCTTCCACCCAAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATAc < 1:25407/90‑1 (MQ=255) gCTTGCACCCAAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGc < 1:434377/90‑1 (MQ=255) | ATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGC > NZ_CP009273/3658977‑3659140 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |