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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,497,670 |
A→G |
47.5% |
D123D (GAT→GAC) |
nuoE ← |
NADH:ubiquinone oxidoreductase, chain E |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,497,670 | 0 | A | G | 47.5%
| 3.3
/ 89.0
| 99 | D123D (GAT→GAC) | nuoE | NADH:ubiquinone oxidoreductase, chain E |
| Reads supporting (aligned to +/- strand): ref base A (25/27); new base G (22/25); total (47/52) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
CATCATGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACC > minE/1497607‑1497729
|
catcatGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaaa > 1:967532/1‑69 (MQ=255)
catcatGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaaa > 1:878309/1‑69 (MQ=255)
catcatGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaaa > 1:261903/1‑69 (MQ=255)
catcatGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaaa > 1:1970548/1‑69 (MQ=255)
catcatGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaaa > 1:189207/1‑69 (MQ=255)
catcatGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaaa > 1:1590477/1‑69 (MQ=255)
catcatGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCaa > 1:684912/1‑68 (MQ=255)
cacaGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTg < 1:1685023/68‑1 (MQ=255)
cacaGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTg < 1:2432143/68‑1 (MQ=255)
cacaGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTg < 1:320884/68‑1 (MQ=255)
cacaGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTg < 1:540062/68‑1 (MQ=255)
acaGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGatttc > 1:2181581/1‑66 (MQ=255)
acaGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGatttc > 1:2848761/1‑66 (MQ=255)
tCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCa > 1:2732552/1‑69 (MQ=255)
tCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTATGCCCTGGTTTGATGTTc > 1:787459/1‑68 (MQ=255)
ccccAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCa > 1:2204880/1‑68 (MQ=255)
ccccAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAg > 1:600004/1‑69 (MQ=255)
ccccAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAg > 1:2562124/1‑69 (MQ=255)
ccccAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAg > 1:1147377/1‑69 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2804792/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2431471/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:1094676/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:1456516/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:677137/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:850382/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:490298/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2180161/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2641393/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2148497/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:448603/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:3349765/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2839287/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:1488758/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:406970/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:727351/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2889864/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:767449/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:3229037/68‑3 (MQ=255)
cAGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:3236985/68‑3 (MQ=255)
aGGCAGCAAGTTGGCAGCAGCGTGAAGCGACCGGCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:3341713/67‑3 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGTCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:987417/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:3397819/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:1072642/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:935599/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:1361994/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:1486282/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:3379001/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:297614/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:2904740/68‑1 (MQ=255)
cagcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt < 1:2048088/68‑1 (MQ=255)
agcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCGCTGGTTTGATGTTCAGCTTTTtc > 1:3110327/1‑68 (MQ=255)
agcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCttttt > 1:1805057/1‑67 (MQ=255)
agcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTtc > 1:1989886/1‑68 (MQ=255)
agcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTtc > 1:2187861/1‑68 (MQ=255)
agcaAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTtc > 1:290515/1‑68 (MQ=255)
agcaAGTTGGAAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTtc > 1:517591/1‑68 (MQ=255)
aaGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTg < 1:1849653/50‑1 (MQ=255)
tGGCAGCAGCGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:925892/56‑3 (MQ=255)
gcagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCgccgcc > 1:971651/1‑68 (MQ=255)
gcagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCgccgcc > 1:3275549/1‑68 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2583933/50‑3 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGtttttt > 1:1996598/1‑54 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGtttttt > 1:1424356/1‑54 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGtttttt > 1:975358/1‑54 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTtttt > 1:858978/1‑53 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:131063/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:1296784/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:866241/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:1140323/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:921597/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:1090874/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:14375/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:671304/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:1462393/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:147423/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:1475128/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:1543217/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:1887750/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:2887291/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:185666/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:2679694/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:2173791/1‑55 (MQ=255)
cagcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAGTTTTTtc > 1:3101697/1‑55 (MQ=255)
cagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCTCCGCCTg < 1:1814104/69‑1 (MQ=255)
cagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTg < 1:2215189/69‑1 (MQ=255)
cagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTg < 1:52228/69‑1 (MQ=255)
cagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTg < 1:1884037/69‑1 (MQ=255)
cagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTg < 1:3144283/69‑1 (MQ=255)
cagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTg < 1:780585/69‑1 (MQ=255)
cagcGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTg < 1:3402343/69‑1 (MQ=255)
agcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:1141257/49‑3 (MQ=255)
gcGTGAAGCGACCGTCAAATGTCGTTTGCCCTGGTTTGATGTTCAgtt < 1:2606248/48‑3 (MQ=255)
gTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATa > 1:220777/1‑69 (MQ=255)
gTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATa > 1:2226820/1‑69 (MQ=255)
aaaGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATAcc < 1:3052137/69‑1 (MQ=255)
aaaGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATAcc < 1:912095/69‑1 (MQ=255)
aaaGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATAcc < 1:1645941/69‑1 (MQ=255)
aaaGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATAcc < 1:963642/69‑1 (MQ=255)
aaaGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATAcc < 1:2824926/69‑1 (MQ=255)
|
CATCATGTTTGGCCCTTTATCACAGTTCCCCAGGCAGCAAGTTGGCAGCAGCGTAAAGCGGCCATCAAATGTCGTTTGCCCTGGTTTGATGTTCAGCTTTTTCTCGAGCGCCGCCTGAATACC > minE/1497607‑1497729
|
| 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
