| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,659,046 | 0 | A | T | 54.5% | 5.4 / 25.3 | 22 | I42N (ATT→AAT) | gadX | acid resistance transcriptional activator GadX |
| Reads supporting (aligned to +/- strand): ref base A (3/7); new base T (0/12); total (3/19) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.79e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.69e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTC > NZ_CP009273/3658969‑3659130 | cctTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCAt < 2:516917/90‑1 (MQ=255) ctTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGTCACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATc < 2:17299/90‑1 (MQ=255) gCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaa < 1:273029/90‑1 (MQ=255) cATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCaaa < 2:483052/90‑1 (MQ=255) aatGAAGGCGTGTCCCTTGACACAAATAAAAAATTTTCAACCCCCTTATCTACTCGATTTTGGCTTGCATCCGCAAAAACCAGGTCACCg < 2:181482/90‑1 (MQ=255) aatGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACCCTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCg < 1:191364/90‑1 (MQ=255) aaGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCAtt > 2:30350/1‑90 (MQ=255) cTTGACACAAAAAAAAATTTTTCAACCCCTTTATCTACTCGATTTTGGCTTGCACCCAAAAAACCCAGGTCCCCGCCATTAAAATAGCGa < 2:50553/90‑1 (MQ=255) cacaAATAAAAATTTTTCAACCCCTTTTTCTCCTCAATTTTGGCTTCCACCCGAAAAACCCGGGTCCCCGCCATTAAAATAGCGATATTc < 1:491334/90‑1 (MQ=255) cacaAATAAAAAATTTTCAACCCCCTTATCTCCTCAATTTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTc < 1:348852/90‑1 (MQ=255) caaaaaTAAAAATTTTTCAACCCTTTTATCTCCTCGATTTTGGCTTGCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTc < 1:486144/86‑1 (MQ=255) caaaaaTAAAAAATTTACAACCCATTTATCTCCACAATTTTGGTTTCCACCCAAAAAACCCAGGTCCCCGCCATTAAAATAGCGATATTc < 2:484668/86‑1 (MQ=255) ccaaaTAAAAAATTTTCAACCCCCTTATCTCCTCAAATTTGGCTTGCACCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCa < 1:150489/87‑1 (MQ=255) tCAACACATTTATCTACTCAATTTTGGCTTCCATCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 1:109510/90‑1 (MQ=255) caaaCACACTTATCTACACGATTTTGCCTAACCCCCAAAAAACCCGGTTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTg < 2:522090/88‑1 (MQ=255) cccacTTATCTACTAAATTTTGGCTTCCCCCCAAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGaa < 2:192043/88‑1 (MQ=255) acatTTATCTCCTCAATTTTGGCTTGCACCCAAAAAACCCAGGCCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAat < 1:515069/90‑1 (MQ=255) tCTACTCGATTTTGGCTTCCACCCGAAAAACCCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTa < 1:273143/90‑1 (MQ=255) tCTACTCAATTTTGGTTTCCACCCAAAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTa < 2:414932/90‑1 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCg > 1:479739/1‑38 (MQ=255) cTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTc > 1:390375/1‑90 (MQ=255) cTCGAATTTGGCTTGCATCCGAAAAAACCAGGTCACCg < 2:479739/38‑1 (MQ=255) | CCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACACTTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTC > NZ_CP009273/3658969‑3659130 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |