| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,058,958 | 0 | G | A | 40.9% | 47.8 / 22.4 | 44 | L57L (CTG→TTG) | yihO | MFS transporter |
| Reads supporting (aligned to +/- strand): ref base G (19/7); new base A (0/18); total (19/25) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.53e-07 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AATTTGCCTTTAGGCCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGTACCGATGCAGAG > NZ_CP009273/4058870‑4059039 | aaTTTGCCTTTAGGTCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGa < 2:1053388/90‑1 (MQ=255) ttGCCTTTAGGCCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAg > 2:518866/1‑90 (MQ=255) ttGCCTTTAGGCCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAg > 2:1186986/1‑90 (MQ=255) gCCTTTAGGCCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGAt > 1:689377/1‑90 (MQ=255) ttAGGCCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATc > 2:1098647/1‑90 (MQ=255) tAGGCCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATcc > 2:1269126/1‑90 (MQ=255) cccaaaTATTTTCCCGCGAGTCAAAAAAAAATCCGGTGAGCATATCGGAAAACGCGAAAAAAACCTCCCCCACA‑AGAAAAATAACCCCGc < 1:1428199/86‑1 (MQ=255) ccAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCa > 1:41527/1‑90 (MQ=255) cAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGa < 1:774791/74‑1 (MQ=255) cAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGa > 2:774791/1‑74 (MQ=255) ttttCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAg > 1:1319978/1‑90 (MQ=255) ttttCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAg > 2:1428199/1‑90 (MQ=255) tttCCGCGAGTCGAAAAAAAATCCGGTGAGCATATCGGAAACCGCGGAAAAAAACTTCGCCACC‑AGAAAGATAACCCCGCCATAGTAAGc < 2:1318141/90‑1 (MQ=255) ccGCGAGTCGAGAAAAAATCCGGTGAGCATATCGGAAAACGCGGAAAAAACCTTCGCCACC‑AAAAAGATAATCCCGCCATAGTAAGCAgg < 2:1006727/90‑1 (MQ=255) cgcgAGTCAAGAAAAAACCCGGGGACAATACCGGAAACCGCGGAAAAAACCTCCCCCCCA‑AAAAAAAAAATCCCGCCATAGTAAGCAGGc < 2:973003/90‑1 (MQ=255) gggagtcgaaaAAAAACCCGGAGAAAATACCGAAAAACGCGAAAAAAACCCCCCCCCCA‑AAAAAAAAAACCCCGCCATAGTAAGCAGGCa < 1:1186986/88‑1 (MQ=255) gcgAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGaa < 2:1334663/63‑1 (MQ=255) gcgAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGaa > 1:1334663/1‑63 (MQ=255) gcgAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCa > 1:1082219/1‑90 (MQ=255) gcgAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCa > 1:912333/1‑90 (MQ=255) gcgAGTCGAGAAAAAACCCGGGGAGCATACCGGAAACCGGGAAAAAAACCTCCCCCACA‑AAAAAAATAACCCCGCCATAGTAAGCAGGCa < 1:76220/90‑1 (MQ=255) gcgAGTCGAAAAAAAACCCGGTGAGCATACCGGAAAACGCGAAAAAAACCTCCCCCACA‑AAAAAAAAAACCCCGCCATAGTAAGCAGGCa < 1:518866/90‑1 (MQ=255) gcgAGTAGAGAAAAAACCGGGGGAGAATACCGGAAAACGGGAAAAAAACCTCCCCCACA‑AAAAAAATAATCCCGCCATAGTAAGCAGGCa < 1:1194779/90‑1 (MQ=255) agtcgagtAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCATcc > 1:796740/1‑90 (MQ=255) gagtAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCga > 1:772262/1‑67 (MQ=255) gagtAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCga < 2:772262/68‑2 (MQ=255) gagtAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCATCCCTaa > 1:1111243/1‑90 (MQ=255) aaaaCCGGGTGAGCATATGGAAAAACGGGAAAAAAATCTCCCCCACA‑AAAAAGATATTCCCGCCATAGTAAGCAGGCATCCCTAATTCAt < 2:1082219/90‑1 (MQ=255) cATATCGGTAAACGCGAAAAAAAACTTCGCCACA‑AAAAAGAAAATCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAAttt < 2:1278851/90‑1 (MQ=255) tCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTgagg > 2:1193181/1‑90 (MQ=255) cGGAAAACGCGGAAAAAACCTCCCCCACA‑AAAAAAAAAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTgagga < 1:174640/90‑1 (MQ=255) cGGAAAACGCGAAAAAAACCTCCCCCCCA‑AAAAAAAAAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTgagga < 1:169821/90‑1 (MQ=255) ggTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGACATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTgaggag > 1:1044661/1‑90 (MQ=255) gaaaaCGCGAAAAAAAACTTCCCCACA‑AAAAAAAAAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGgaga < 1:1349084/88‑1 (MQ=255) aaaaCGCGAAAAAAACCTCCCCCCCC‑AGAAAAATAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGAt < 2:355528/89‑1 (MQ=255) gcgTTAAAAAATTTCCCCACA‑AAAAAGATACTCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACaga < 2:1319978/90‑1 (MQ=255) gcgGAAAAAAACTCCCCCACA‑AAAAAAATAATCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACaga < 2:1075358/90‑1 (MQ=255) gaaaaaaacCTCCCCCACA‑AAAAAAATAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGt < 2:2234/87‑1 (MQ=255) gaaaaaaaaCTCCCCCCCA‑AAAAAAAAAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGt < 2:615374/87‑1 (MQ=255) aaaaaaaacCTCCCCCACA‑AAAAAAAAAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGt < 1:432210/87‑1 (MQ=255) gaaaaaaaCCTCCCCCCCAAAAAAAAAAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGt < 1:1331312/88‑1 (MQ=255) gTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGTa > 1:948871/1‑90 (MQ=255) tAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGTAc > 1:69269/1‑90 (MQ=255) ccccacc‑aAAAAAATAACCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGTACCGATGCagag < 2:1212597/88‑1 (MQ=255) | AATTTGCCTTTAGGCCCAATATTTTTCCGCGAGTCGAGTAAAAATCCGGTGAGCATATCGGTAAACGCGGTAAAAAACTTCGCCACC‑AGAAAGATAATCCCGCCATAGTAAGCAGGCATCCCTAATTCATCGGTATAAAATTTGAGGAGATACAGAGTACCGATGCAGAG > NZ_CP009273/4058870‑4059039 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |