| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,548,257 | 0 | T | G | 53.3% | 10.5 / 18.7 | 16 | Y557S (TAC→TCC) | maeA | malate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base T (2/5); new base G (8/0); total (11/5) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.99e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.29e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GATCTGAAAAAGGGAGAGGGAAATAGCCCGGTAGCCTTCACTACCGGGCGCAGGCTTAGATGGAGGTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCAGAGGTTTTCACCGCCACGCCTTGCTGCTGCGCCA > NZ_CP009273/1548174‑1548341 | gaTCTGAAAAAGGGAGAGGGAAATAGCCCGGTAGCCTTCACTACCGGGCGCAGGCTTAGATGGAGGTACGGCGGTAGTCGCGGGA‑TTCgg > 2:326584/1‑90 (MQ=255)gaTCTGAAAAAGGGAGAGGGAAATAGCCCGGTAGCCTTCACTACCGGGCGCAGGCTTAGATGGAGGTACGGCGGGAGTCGCGGGA‑TTTgg > 1:114804/1‑90 (MQ=255)gaTCTGAAAAAGGGAGAGGGAAATAGCCCGGTAGCCTTCACTACCGGGCGCAGGCTTAGATGGAGGTACGGCGGGAGTCGCGGGA‑TTCgg > 2:370708/1‑90 (MQ=255) ggAGAGGGAAATAGCCCGGTAGCCTTCACTACCGGGCGCAGGCTTAGATGGAGGTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAAt < 2:573332/90‑1 (MQ=255) gagGGAAATAGCCCGGTAGCCTTCACTACCGGGCGCAGGCTTAGATGGAGGTACGGCGGCGGGTGCGGCG‑TTTGGCTTGCCGAAAAATTa > 1:329658/1‑90 (MQ=255) ggCGCAGGCTTAGATGGAGGTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCaga < 2:329658/90‑1 (MQ=255) gcgcAGGCTTAGATGGAGGTACGGCGGTAGGCGCGGGATTTCGGTTTGCC‑‑GAAAATAACTGCAAAGGGCTGGTTGA‑CGGGTTCGGCaggg > 1:577455/1‑88 (MQ=255) tAGATGGAGGTACGGCGGTAGTCGCGGGA‑TTCGGCTTGCC‑CGAAATTATCGTCAATGGCCTGTTTCA‑GGGGTTTGGGGGAGGGTTTTAcc > 1:98460/1‑90 (MQ=255) gAGGTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCag > 1:91146/1‑73 (MQ=255) gAGGTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCag < 2:91146/73‑1 (MQ=255) gAGGTACGGCGGTAGTCGCGGGA‑TTCGGCTTGCC‑AGAAAATATCGTCAATGGCCCGTTGCAGGGGCTTCGGCAGAGGGTTTCACCGcccc > 1:350143/1‑88 (MQ=255) aGGTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCAGAGGTTTTCACCGCCACGc < 2:239588/90‑1 (MQ=255) ggTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCa < 1:51925/59‑1 (MQ=255) ggTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCa > 2:51925/1‑59 (MQ=255) cggcggTAGTCGCGGGA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCAGAGGGTTTCACCGCCACGCCTtgc > 2:89169/1‑90 (MQ=255) cgcgGGA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCAGAGGGTTTTACCGCCACGCCTTGCTGCTGCGCCa > 1:529874/1‑90 (MQ=255) | GATCTGAAAAAGGGAGAGGGAAATAGCCCGGTAGCCTTCACTACCGGGCGCAGGCTTAGATGGAGGTACGGCGGTAGTCGCGGTA‑TTCGGCTTGCC‑AGAAATTATCGTCAATGGCCTGTTGCA‑GGGCTTCGGCAGAGGTTTTCACCGCCACGCCTTGCTGCTGCGCCA > NZ_CP009273/1548174‑1548341 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |