| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,549,566 | 0 | T | C | 53.3% | 4.9 / 17.9 | 15 | S215G (AGT→GGT) | rtcA | RNA 3'‑terminal phosphate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (7/0); new base C (0/8); total (7/8) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.55e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.72e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCAC > NZ_CP009273/3549494‑3549644 | aaaGCGCGACGTTATCCCCCGGCCCCGGGTCGCGGGGCTGTTTTTTATTATTCTGTCCGGGAAGAAAAAAC‑CCCCCCGCCAGTGTAGCGa < 1:177689/89‑1 (MQ=255)aaaGCGAGAGGTTATTCCCCGCCCCCTGGCCGCGCGGCAGGTTATAAATTTTCTGTTCAGGAAGGAAAAAC‑CCCCCCGCCAGTGTAGCGa < 1:162477/89‑1 (MQ=255) gttATTCCCCGCCCCCTGGCCGCGCGGCAGTTTATAAATTTTCTGTTCATGAAGGGAAAAC‑CCCCCCGCCAGTGTAGCGATTTCACGCTc < 1:37854/88‑1 (MQ=255) aCCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAAc > 2:159471/1‑90 (MQ=255) ccGCCCCCTGGCCGCGCGGCGGTTTATAAATATTCTGTTCATGCAGGAAAAAC‑CCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACAt < 2:113749/90‑1 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACCTgtc > 2:76971/1‑88 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:113617/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:204696/1‑90 (MQ=255) gCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGgc > 1:324726/1‑90 (MQ=255) cTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCgg > 1:195530/1‑90 (MQ=255) ttATAAATTTTCTGTTCA‑GGAGGGAAAAACCCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGa < 1:159471/90‑1 (MQ=255) ttCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCa > 1:222934/1‑90 (MQ=255) tttGTTCAGGCAGGAAAAAC‑CCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCAc < 2:204696/88‑1 (MQ=255) tGCAGGAAAACC‑CCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGc < 2:195530/90‑1 (MQ=255) cAGGAAAAAC‑CCCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGcac < 2:113617/90‑1 (MQ=255) | CAAGCGAGACGGTATTACCCGGCCCCTGGTCGCGCGGCAGGTTATGAATATTCTGTTCATGCAGGGAAAAA‑CTCCCCGCCAGTGTAGCGATTTCACGCTCAGCAACATGGCGCGGCACACCAGCTAATAGAACTTCTCCACGCATCTGCAC > NZ_CP009273/3549494‑3549644 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |