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 |
|
A1 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,821,480 |
T→C |
63.1% |
T316A (ACC→GCC) |
recA ← |
DNA strand exchange and recombination protein with protease and nuclease activity |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,821,480 | 0 | T | C | 63.1%
| 41.2
/ 43.5
| 46 | T316A (ACC→GCC) | recA | DNA strand exchange and recombination protein with protease and nuclease activity |
| Reads supporting (aligned to +/- strand): ref base T (10/7); new base C (19/10); total (29/17) |
| Fisher's exact test for biased strand distribution p-value = 7.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTG > W3110S.gb/2821425‑2821544
|
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCttt > 1:1039627/1‑71 (MQ=255)
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCttt > 1:978342/1‑71 (MQ=255)
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCttt > 1:2987141/1‑71 (MQ=255)
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCttt > 1:1577903/1‑71 (MQ=255)
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCttt > 1:1330594/1‑71 (MQ=255)
gAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCttt > 1:1287592/1‑71 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:1364159/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:1454582/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:2287161/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:2211602/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:1100036/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:2184916/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:2083292/71‑1 (MQ=255)
aaCTCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGc < 1:1927906/71‑1 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGTCAGTCGCATTCGCtt < 1:303743/71‑1 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:1066299/71‑1 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:2598976/71‑1 (MQ=255)
cTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:2419334/71‑1 (MQ=255)
taaCGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:1172733/3‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGt > 1:496021/1‑40 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:1732896/1‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:692333/1‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:699724/1‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:3199502/1‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:1203616/1‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:818874/1‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt > 1:1029973/1‑70 (MQ=255)
tCACGTACTTTCTTCTCGATCTCTTTAGCGGCTTCCGGGTTATCTTTCAGCCat > 1:3029216/1‑53 (MQ=38)
tACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCt > 1:1540037/1‑71 (MQ=255)
tACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCt > 1:438745/1‑71 (MQ=255)
tACTTTCTTCTCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCt > 1:1987969/1‑71 (MQ=255)
tcttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTc > 1:1460650/1‑38 (MQ=255)
tcttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTc > 1:2701905/1‑38 (MQ=255)
tcttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTc > 1:615863/1‑38 (MQ=255)
tcttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGAcc > 1:969857/1‑70 (MQ=255)
tcttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGAcc > 1:1543173/1‑70 (MQ=255)
tcttctCGATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGAcc > 1:1643666/1‑70 (MQ=255)
gATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGAtcttc < 1:3012978/70‑1 (MQ=255)
gATCTCTTTCGCGGCTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGAtcttc < 1:2026057/70‑1 (MQ=255)
aTCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTa < 1:2826525/54‑1 (MQ=255)
aTCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTa < 1:297783/54‑1 (MQ=255)
tctcTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCtt < 1:1728297/51‑1 (MQ=255)
tctTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGa > 1:1380953/1‑57 (MQ=255)
tctTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGa > 1:1582750/1‑57 (MQ=255)
tCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTg > 1:674795/1‑71 (MQ=255)
tCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTg > 1:1107154/1‑71 (MQ=255)
|
GAGTTCGGGTTGCTCAGCAGCAACTCACGTACTTTCTTCTCGATCTCTTTCGCGGTTTCCGGGTTATCTTTCAGCCAGGCAGTCGCATTCGCTTTACCCTGACCGATCTTCTCACCTTTG > W3110S.gb/2821425‑2821544
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
