| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,584,706 | 0 | A | G | 62.5% | 12.4 / 24.8 | 24 | F327S (TTC→TCC) | ugpB | sn‑glycerol‑3‑phosphate ABC transporter substrate‑binding protein UgpB |
| Reads supporting (aligned to +/- strand): ref base A (5/4); new base G (8/7); total (13/11) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.38e-01 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TGGGTTTTTCTCATAAAAGCCCTGCTCACGGGTCAGGTCATACGCTGCTTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGAACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAGGCTGGCTCCGCCGATAATGGCGTTTTGTGGCGCATCTTTCGCATCGGCGTCGTAAGGCATCATGCCTACGCCGTAG > NZ_CP009273/3584585‑3584834 | tGGGTTTTTCTCATAAAAGCCCTGCTCACGGGTCAGGTCATACGCTGCTTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGta > 1:432903/1‑139 (MQ=255) tttttCTCATAAAAGCCCTGCTCACGGGTCAGGTCATACGCTGCTTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACg < 2:432903/139‑1 (MQ=255) gtcaTACGCTGCTTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAgg > 2:305469/1‑139 (MQ=255) aCGCTGCTTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAggctggc > 1:296605/1‑139 (MQ=255) aCGCTGCTTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGAACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAggctggc > 1:207542/1‑139 (MQ=255) ctTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTtct < 1:179627/101‑1 (MQ=255) ctTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTtct > 2:179627/1‑101 (MQ=255) ccGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGAACTTCGc > 1:127335/1‑62 (MQ=255) ccGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGAACTTCGc < 2:127335/62‑1 (MQ=255) gTTTTCTGATGCCACTCGTCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCca > 2:113970/1‑61 (MQ=255) gTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCca < 1:113970/61‑1 (MQ=255) gTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGAACTTCGCcaca > 1:329439/1‑63 (MQ=255) gTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGAACTTCGCcaca < 2:329439/63‑1 (MQ=255) ttCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGCGGAAATCGAGGGACTTCGCcac > 2:224170/1‑59 (MQ=39) ttCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCcac < 1:224170/59‑1 (MQ=255) tGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAGGCTGGCTCCGCCGATAATGGCGTTTTGTGGCGCATCTTTCg > 2:133154/1‑139 (MQ=255) gCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCAt > 1:517938/1‑77 (MQ=255) gCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCAt < 2:517938/77‑1 (MQ=255) aGCGTTTTCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAGGCTGGCTCCGCCGATAATGGCGTTTTGTGGCGCATCTTTCGCATCGGCGTCGTaa < 1:133154/139‑1 (MQ=255) ttCTGGCTTCGCGAGGAAATCGAGGGACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAGGCTGGCTCCGCCGATAATGGCGTTTTGTGGCGCATCTTTCGCATCGGCGTCGTAAGGcat < 2:296605/138‑1 (MQ=255) ttCTGGCTTCGCGAGGAAATCGAGGAACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAGGCTGGCTCCGCCGATAATGGCGTTTTGTGGCGCATCTTTCGCATCGGCGTCGTAAGGcat < 2:28761/138‑1 (MQ=255) tCTGGCTTCGCGAGGAAATCGAGGAACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCAt > 1:72672/1‑68 (MQ=255) tCTGGCTTCGCGAGGAAATCGAGGAACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCAt < 2:72672/68‑1 (MQ=255) gAAATCGAGGAACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAGGCTGGCTCCGCCGATAATGGCGTTTTGTGGCGCATCTTTCGCATCGGCGTCGTAAGGCATCATGCCTACGCCGTAg > 2:169669/1‑139 (MQ=255) | TGGGTTTTTCTCATAAAAGCCCTGCTCACGGGTCAGGTCATACGCTGCTTTGGTGATTGGCAGATAACCGGTTTTCTGATGCCACTCGGCAGCGTTTTCTGGCTTCGCGAGGAAATCGAGGAACTTCGCCACACCGGTATACGTTTCTTTATCTTTACCCTGCATCACCCACAGGCTGGCTCCGCCGATAATGGCGTTTTGTGGCGCATCTTTCGCATCGGCGTCGTAAGGCATCATGCCTACGCCGTAG > NZ_CP009273/3584585‑3584834 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |