Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate | Predicted Mutations | Mean Coverage | Total Reads | Percent Mapped | Mapped Reads | Average Read Length |
|---|---|---|---|---|---|---|
| A12 F1 I1 R1 | 760 | 58.2 | 3022526 | 90.8% | 2744453 | 102.0 |
Breseq alignment
| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 2,787,434 | G→A | pseudogene (1038/2253 nt) | ygaQ → | uncharacterized protein, putative enzyme |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,787,434 | 0 | G | A | 100.0% | 182.8 / NA | 56 | pseudogene (1038/2253 nt) | ygaQ | uncharacterized protein, putative enzyme |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (31/25); total (31/25) | |||||||||||
TATACCTTTAACTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAGCAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTCGAAGCAAGTAAAGATAAC > NC_000913/2787318‑2787548 | tataCCTTTAACTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTcc < 2:649745/137‑1 (MQ=255)tataCCTTTAACTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTcc > 1:649745/1‑137 (MQ=255) aCCTTTAACTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGt > 2:548139/1‑120 (MQ=255) aCCTTTAACTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGt < 1:548139/120‑1 (MQ=255) aCCTTTAACTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCcattca > 2:638980/1‑139 (MQ=255) aCTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca > 1:1109834/1‑128 (MQ=255) aCTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca < 2:1109834/128‑1 (MQ=255) tATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCa > 2:4836/1‑139 (MQ=255) aGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGa < 1:84676/103‑1 (MQ=255) aGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGa > 2:84676/1‑103 (MQ=255) ctgctgATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGt > 1:883899/1‑97 (MQ=255) ctgctgATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGt < 2:883899/97‑1 (MQ=255) ctgctgATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACAtct < 1:4836/139‑1 (MQ=255) tgATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGttt > 1:218368/1‑68 (MQ=255) tgATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGttt < 2:218368/68‑1 (MQ=255) atatACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCcattcatt > 1:1376306/1‑80 (MQ=255) atatACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCcattcatt < 2:1376306/80‑1 (MQ=255) atatACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCaga > 1:192533/1‑121 (MQ=255) atatACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACAt < 1:568857/131‑1 (MQ=255) atatACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACAt > 2:568857/1‑131 (MQ=255) atatACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGCTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCaga < 2:192533/121‑1 (MQ=255) aGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGt > 2:329556/1‑52 (MQ=255) aGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGt < 1:329556/52‑1 (MQ=255) aGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca < 1:189562/67‑1 (MQ=255) aGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca > 2:189562/1‑67 (MQ=255) aGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGAc > 2:664252/1‑139 (MQ=255) aGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGAc > 1:86312/1‑139 (MQ=255) gAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTc > 2:643951/1‑139 (MQ=255) aaGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGAtt < 2:345169/60‑1 (MQ=255) aaGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGAtt > 1:345169/1‑60 (MQ=255) aaGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTCg > 1:303245/1‑139 (MQ=255) aGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTCGa > 1:901962/1‑139 (MQ=255) gTAAAGATATAGAAGGTGGTATCCCTGGCTATTAACa > 1:673120/1‑37 (MQ=255) tAAAGATATAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTCGAAGCAAGt < 2:303245/139‑1 (MQ=255) atatAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGa < 2:760173/76‑1 (MQ=255) atatAGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGa > 1:760173/1‑76 (MQ=255) ataGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAat > 1:1106649/1‑86 (MQ=255) ataGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAat < 2:1106649/86‑1 (MQ=255) ataGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTCGAAGCAAGTAAAGATa > 1:1352702/1‑139 (MQ=255) aGAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTCGAAGCAAGTAAAGATAAc < 1:643951/139‑1 (MQ=255) gAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca > 2:1237283/1‑45 (MQ=255) gAAGGTGGTATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca < 1:1237283/45‑1 (MQ=255) gtggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca > 2:987967/1‑41 (MQ=255) gtggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCca < 1:987967/41‑1 (MQ=255) gtggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTaa > 2:611227/1‑49 (MQ=255) gtggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTaa < 1:611227/49‑1 (MQ=255) tggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTaa > 1:969349/1‑59 (MQ=255) tggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTaa < 2:969349/59‑1 (MQ=255) ggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCag < 2:1210894/85‑1 (MQ=255) ggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCag > 1:1210894/1‑85 (MQ=255) ggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACAt < 2:516896/96‑1 (MQ=255) ggtATCCCTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACAt > 1:516896/1‑96 (MQ=255) cccTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAatccatcc > 1:826276/1‑78 (MQ=255) cccTGGCTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAatccatcc < 2:826276/78‑1 (MQ=255) cTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTaaa > 1:946844/1‑61 (MQ=255) cTATTAACAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTaaa < 2:946844/61‑1 (MQ=255) | TATACCTTTAACTTTATGGGAATTGGGGGTAGTGGTAAAAATGACCTGGATTATCCCTCTGCTGATATACGAGCGAAGATCAGTAAAGATATAGAAGGTGGTATCCCTGGCTATTAGCAAGGTCAGGTTTTGATTCCATTCATTAAAGATCCAGTAACAAAAGAACGTAAACAAATCCATCCAGAAGATATACATCTCACTGCAAAAGACTTCGAAGCAAGTAAAGATAAC > NC_000913/2787318‑2787548 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |