| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | W3110S.gb | 4,549,753 | C→T | 100% | intergenic (+42/‑25) | fimC → / → fimD | chaperone, periplasmic/outer membrane usher protein, type 1 fimbrial synthesis |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | W3110S.gb | 4,549,753 | 0 | C | T | 91.7% | 29.0 / ‑3.3 | 12 | intergenic (+42/‑25) | fimC/fimD | chaperone, periplasmic/outer membrane usher protein, type 1 fimbrial synthesis |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (3/8); total (3/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
CCCCCAAAATGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAACACAC > W3110S.gb/4549683‑4549817 | cccccAAAATGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGcc < 1:1119767/71‑1 (MQ=255)cccccAAAATGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGcc < 1:1673912/71‑1 (MQ=255)cccccAAAATGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGcc < 1:286009/71‑1 (MQ=255) aTGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCTGGGTGAtt > 1:1285478/1‑71 (MQ=255) tGAAGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCTGGGTGAttt > 1:403049/1‑71 (MQ=255) gAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaat < 1:1694401/71‑1 (MQ=255) aaTAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCTGGGTGATTTTAAGCCGGAGGaata < 1:1763043/71‑1 (MQ=255) aaTAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCTGGGTGATTTTAAGCCGGAGGaata < 1:22031/71‑1 (MQ=255) aGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGcc < 1:623614/39‑1 (MQ=255) gCCTGAATAAAAAGAATTGACTGCTGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGa < 1:613546/70‑1 (MQ=255) gCCTGAATAAAAAGAATTGACTGCTGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGa < 1:950819/70‑1 (MQ=255) gCCTGAATAAAAAGAATTGACTGCTGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGa < 1:993509/70‑1 (MQ=255) aaaaaGAATTGACTGCTGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAg > 1:1713273/1‑71 (MQ=255) aCTGCTGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAacacac < 1:486979/70‑1 (MQ=255) aCTGCTGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAacacac < 1:776797/70‑1 (MQ=255) aCTGCTGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAacacac < 1:779624/70‑1 (MQ=255) | CCCCCAAAATGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAACACAC > W3110S.gb/4549683‑4549817 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |