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 |
|---|---|---|---|---|---|---|
| A8 F1 I1 R1 | 771 | 44.8 | 2153074 | 94.1% | 2026042 | 109.1 |
Breseq alignment
| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 3,078,852 | T→C | N3S (AAC→AGC) | cmtA ← | putative mannitol‑specific PTS IIB and IIC components |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,078,852 | 0 | T | C | 98.4% | 220.9 / NA | 64 | N3S (AAC→AGC) | cmtA | putative mannitol‑specific PTS IIB and IIC components |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (28/35); total (28/36) | |||||||||||
| 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 | |||||||||||
GTTCGTTAGGCAGCCAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGTTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCTGTTAAGAGTTGTTCGAGTATTTCTTCTTCGCACAGTAATTCACTT > NC_000913/3078718‑3078977 | gTTCGTTAGGCAGCCAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTc < 2:999127/139‑1 (MQ=255) tCGTTAGGCAGCCAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCa < 2:582626/139‑1 (MQ=255) tCGTTAGGCAGCCAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCa < 1:250204/139‑1 (MQ=255) cAGCCAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGTTTTCCATAAtatta < 2:700449/139‑1 (MQ=255) aGCCAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAAtattat > 1:432012/1‑139 (MQ=255) accAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc < 1:161343/138‑1 (MQ=255) ccAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATcc > 1:309736/1‑139 (MQ=255) gTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTagag < 2:283809/139‑1 (MQ=255) gggAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAgagga < 1:1059222/139‑1 (MQ=255) ataaCGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTaa < 2:549573/139‑1 (MQ=255) taaCGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAAt > 2:285802/1‑139 (MQ=255) cGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCataata > 1:270638/1‑112 (MQ=255) cGCAGTAATAAAACCCCAGGCAATAAAAGCACCAAGATTGGGGATGACCTTTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCataata < 2:270638/112‑1 (MQ=255) gCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACGATTGCAGTGAAAAAGCCCACAAAAGCGTGGAACTTTGAACGAGCAGAATTGCTTTACATAATATTATAGTGTAGAGGAGAGAGTAATTATc > 2:303489/1‑139 (MQ=255) gCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATc > 1:34583/1‑139 (MQ=255) aGTAATAAAACCCCTGGCAATAAAAGCACCAATATTGGGGAAGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTCTCCATAATATTATc < 1:654267/114‑1 (MQ=255) aGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc > 2:654267/1‑114 (MQ=255) aGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCcg < 1:231011/139‑1 (MQ=255) taataaAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc < 1:346796/112‑1 (MQ=255) taataaAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc > 2:346796/1‑112 (MQ=255) taataaAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAgagga < 1:399162/122‑1 (MQ=255) taataaAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAgagga > 2:399162/1‑122 (MQ=255) taataaAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCcgcg > 1:14492/1‑139 (MQ=255) ccccAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATaa < 1:177986/139‑1 (MQ=255) ccAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc < 2:527080/102‑1 (MQ=255) ccAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc > 1:527080/1‑102 (MQ=255) aGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc < 1:873253/100‑1 (MQ=255) aGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATc > 2:873253/1‑100 (MQ=255) aGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTc > 2:523676/1‑139 (MQ=255) gCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCcgc < 1:576389/124‑1 (MQ=255) gCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCcgc > 2:576389/1‑124 (MQ=255) gCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCg < 2:432012/139‑1 (MQ=255) aaaaGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAAt > 2:420912/1‑139 (MQ=255) gggATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTc > 1:996692/1‑65 (MQ=255) gggATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTc < 2:996692/65‑1 (MQ=255) gggATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGatgatg < 1:523676/139‑1 (MQ=255) gATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTagag > 2:167228/1‑83 (MQ=255) gATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTagag < 1:167228/83‑1 (MQ=255) gATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCt > 2:743899/1‑139 (MQ=255) tGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCTGt < 1:743899/139‑1 (MQ=255) gACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAAtatta > 1:527870/1‑70 (MQ=255) gACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAAtatta < 2:527870/70‑1 (MQ=255) aCCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAgagga < 1:469717/81‑1 (MQ=255) aCCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAgagga > 2:469717/1‑81 (MQ=255) ttGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATc < 1:887224/90‑1 (MQ=255) ttGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATc > 2:887224/1‑90 (MQ=255) aGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCTGTTAAGAgttgt < 1:420912/139‑1 (MQ=255) aaaaGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCTGTTAAGAGTTGTTCGAg < 1:930680/139‑1 (MQ=255) cccccAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGgaga > 1:228030/1‑65 (MQ=255) cccccAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGgaga < 2:228030/65‑1 (MQ=255) cccAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAAtatta < 1:1013433/49‑1 (MQ=255) cccAAAAGCCTGGACCTTTGCACGAGCAGACTTGCTTTCCATAAtatta > 2:1013433/1‑49 (MQ=255) cTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCcgcg > 1:277035/1‑63 (MQ=255) cTTTGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCcgcg < 2:277035/63‑1 (MQ=255) tGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTa > 1:172485/1‑38 (MQ=255) tGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTa < 2:172485/38‑1 (MQ=255) tGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCgg > 2:551667/1‑61 (MQ=255) tGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCgg < 1:551667/61‑1 (MQ=255) tGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGatgatg < 2:554742/95‑1 (MQ=255) tGCACGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGatgatg > 1:554742/1‑95 (MQ=255) gagAGCAGACTTGCTTTCGATTGTTTTTTGCTGTAGTGGAGAGAGTAATTATCACCGGCTGATAATGTGCGATAGTTGTTCTTCTGATGATGCTGTAAAGAGTTGTTCGAGTATTTCTTCTTCGCACAGTAATTGACtt < 2:213277/137‑1 (MQ=255) aCGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCTGTTAAGAGTTGTTCGAGTATTTCTTCTTCGCACAGTAATTCACtt < 2:34583/139‑1 (MQ=255) aCGAGCAGACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCTGTTAAGAGTTGTTCGAGTATTTCTTCTTCGCACAGTAATTCACtt < 2:309736/139‑1 (MQ=255) gACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTgatgat < 2:868951/84‑1 (MQ=255) gACTTGCTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTgatgat > 1:868951/1‑84 (MQ=255) | GTTCGTTAGGCAGCCAACCGGTGGGAATAAATAACGCAGTAATAAAACCCCAGGCAATAAAAGCACCAATATTGGGGATGACCATTGCAGTCAAAAAGCCCCCAAAAGCCTGGACCTTTGCACGAGCAGACTTGTTTTCCATAATATTATCCTGTAGAGGAGAGAGTAATTATCCGCGGCTGATAATGTCCGCTAATTGTTTTTCTGATGATGCTGTTAAGAGTTGTTCGAGTATTTCTTCTTCGCACAGTAATTCACTT > NC_000913/3078718‑3078977 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |