| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_pae_tpiA | 1,341,732 | 1 | . | A | 30.8% | 13.8 / 14.8 | 13 | intergenic (+5/‑189) | yciM/pyrF | LPS regulatory protein; putative modulator of LpxC proteolysis/orotidine‑5'‑phosphate decarboxylase |
| Reads supporting (aligned to +/- strand): ref base . (4/5); new base A (2/2); total (6/7) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.35e-01 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GACATGGTTGGCGAGAAGGTACGTAGTAAGCCTCGTTATCGTTGCCAGAAATGTGGTTTTACCGCATACACCCTCTACTGGCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTACC > NC_000913_3_pae_tpiA/1341584‑1341876 | gACATGGTTGGCGAGAAGGTACGTAGTAAGCCTCGTTATCGTTGCCAGAAATGTGGTTTTACCGCATACACCCTCTACTGGCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑a > 2:1573/1‑150 (MQ=255) acacCCTCTACTGGCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATa < 3:45769/111‑1 (MQ=255) acacCCTCTACTGGCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATa > 4:45769/1‑111 (MQ=255) cccTCTACCGGCATTGTCCGTCTTGTCTTGTCTTGGCATTCTTTAAGCGTATTCGCGTTCTTGATTGCCTTTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCa < 4:54740/150‑1 (MQ=255) tGGCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑aaaaaaaa > 1:113731/1‑79 (MQ=255) tGGCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑aaaaaaaa < 2:113731/79‑1 (MQ=255) gCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTTAAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCAtt > 1:134872/1‑119 (MQ=255) gCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTTAAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCAtt < 2:134872/119‑1 (MQ=255) gTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTc > 1:3384/1‑119 (MQ=255) gTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTc < 2:3384/119‑1 (MQ=255) ttGATGGCCTGTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATg > 2:45346/1‑150 (MQ=255) ccTGTAATTTTTAAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTc > 1:110326/1‑131 (MQ=255) ccTGTAATTTTTAAAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTc < 2:110326/131‑1 (MQ=255) tAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGTAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTa > 4:35893/1‑150 (MQ=255) aaTTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTAc < 1:59029/150‑1 (MQ=255) aTTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGTAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTAcc < 3:35893/150‑1 (MQ=255) | GACATGGTTGGCGAGAAGGTACGTAGTAAGCCTCGTTATCGTTGCCAGAAATGTGGTTTTACCGCATACACCCTCTACTGGCATTGTCCGTCTTGTCGGGCCTGGTCAACCATTAAACCGATTCGCGGTCTTGATGGCCTGTAATTTTT‑AAAAAAAATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCTCGCCGTTTACC > NC_000913_3_pae_tpiA/1341584‑1341876 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |