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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,378,355 |
T→C |
66.7% |
K188E (AAA→GAA) |
yjeJ ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,378,355 | 0 | T | C | 66.7%
| 84.2
/ 62.6
| 69 | K188E (AAA→GAA) | yjeJ | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (15/8); new base C (23/23); total (38/31) |
| Fisher's exact test for biased strand distribution p-value = 3.07e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.44e-01 |
CTTTGCCACTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAACGTCGTAT > W3110S.gb/4378292‑4378419
|
cTTTGCCACTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTcc > 1:1899495/1‑71 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:3648793/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:3559927/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:3387058/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:3181598/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:259399/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:2570884/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:2366443/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:2320179/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:163695/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:1454114/71‑1 (MQ=255)
aCTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTACGGTTggg < 1:1169511/71‑1 (MQ=255)
cATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATa < 1:2357674/70‑1 (MQ=255)
tAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCa > 1:3688843/1‑71 (MQ=255)
tAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCa > 1:1881045/1‑71 (MQ=255)
tAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTAGGAATAGGTGTCa > 1:1225044/1‑71 (MQ=255)
aaGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCata < 1:1512223/71‑1 (MQ=255)
aaGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCata < 1:925599/71‑1 (MQ=255)
aaGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCata < 1:596753/71‑1 (MQ=255)
aaGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCata < 1:3415467/71‑1 (MQ=255)
tAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTc > 1:1851793/1‑68 (MQ=255)
tAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTc > 1:1212700/1‑68 (MQ=255)
tAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTc > 1:2063350/1‑68 (MQ=255)
tAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCa < 1:2902967/70‑1 (MQ=255)
tAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCa < 1:1240515/70‑1 (MQ=255)
tAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCa < 1:3267770/70‑1 (MQ=255)
aaaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTc > 1:3279199/1‑67 (MQ=255)
aaaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTc > 1:2712722/1‑67 (MQ=255)
aaaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTc > 1:2355073/1‑67 (MQ=255)
aaaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTc > 1:2103838/1‑67 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCAtt > 1:2932105/1‑41 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGa > 1:1837200/1‑70 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGAt > 1:3588025/1‑71 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGAt > 1:1207575/1‑71 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGa > 1:3498639/1‑70 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGa > 1:586758/1‑70 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGa > 1:1302560/1‑70 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGAt < 1:1265060/71‑1 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGAt < 1:2674074/71‑1 (MQ=255)
aaGCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGAt < 1:2784528/71‑1 (MQ=255)
aaGCACCGCCAGATAATGATCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGa > 1:927988/1‑70 (MQ=255)
gCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:2776829/48‑1 (MQ=255)
gCACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGa > 1:3145116/1‑68 (MQ=255)
cACCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTggg < 1:2166323/47‑1 (MQ=255)
aCCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGaa > 1:2708320/1‑48 (MQ=255)
aCCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGaa > 1:2371733/1‑48 (MQ=255)
aCCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGaa > 1:2969981/1‑48 (MQ=255)
aCCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGaa > 1:3697724/1‑48 (MQ=255)
aCCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGaa > 1:1941968/1‑48 (MQ=255)
aCCGCCAGATAATGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGaa > 1:863597/1‑48 (MQ=255)
aTGGTCGAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGc < 1:3559669/71‑1 (MQ=255)
tCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGt > 1:2629470/1‑70 (MQ=255)
gAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCaa > 1:2720552/1‑71 (MQ=255)
gAACAAGTTATGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCaa > 1:2617107/1‑71 (MQ=255)
aaCAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCa < 1:1259412/46‑1 (MQ=255)
aaCAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCa < 1:849038/46‑1 (MQ=255)
aCAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAAcg < 1:1775931/71‑1 (MQ=255)
cAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAAcgt > 1:1210033/1‑71 (MQ=255)
cAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAAcgt > 1:3179634/1‑71 (MQ=255)
cAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAAcgt > 1:485810/1‑71 (MQ=255)
cAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAAcgt > 1:1724619/1‑71 (MQ=255)
cAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAAcgt > 1:1554086/1‑71 (MQ=255)
aTGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCAt > 1:3107304/1‑47 (MQ=255)
aTGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCAt > 1:2205868/1‑47 (MQ=255)
aTGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCAt > 1:2195499/1‑47 (MQ=255)
aTGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCAt > 1:1350387/1‑47 (MQ=255)
aTGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAACGTCGtat < 1:3104654/70‑1 (MQ=255)
aTGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAACGTCGtat < 1:1141900/70‑1 (MQ=255)
aTGTTCCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAACGTCGtat < 1:2079112/70‑1 (MQ=255)
|
CTTTGCCACTTTCATCTTTAAAGCGGTAAAGCACCGCCAGATAATGGTCGAACAAGTTATGTTTCCATTCCGGTTGGGAATAGGTGTCATATTCCAGATTGCCATTGTCCTGGCAGTCAACGTCGTAT > W3110S.gb/4378292‑4378419
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
