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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
833,240 |
C→T |
27.6% |
G566G (GGC→GGT) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 833,240 | 0 | C | T | 27.6%
| 132.3
/ 55.2
| 87 | G566G (GGC→GGT) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (34/29); new base T (17/7); total (51/36) |
| Fisher's exact test for biased strand distribution p-value = 2.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.30e-01 |
GGCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCGTCCGCA > minE/833173‑833302
|
ggCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCtgt < 1:1035629/71‑1 (MQ=255)
gCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCtgtg > 1:3725412/1‑71 (MQ=255)
ttaaCCACTGGTATCACATGGACATGAACTACCGCGGGATGATCAATATGCTGATCTTCTGCGGTTgtgt < 1:3337644/68‑1 (MQ=255)
gAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCg > 1:3202465/1‑71 (MQ=255)
aaCCACTGGTATCACATGGACATGAACTACCGCGGGATGATCAATATGCTGATCTTCTGCGGTTGTGTCgg > 1:2572011/1‑71 (MQ=255)
aCCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGt < 1:1917723/71‑1 (MQ=255)
aCCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGt < 1:575325/71‑1 (MQ=255)
aCCACTGGTATCACATGGACATGAACTACCGCGGGATGATCAATATGCTGATCTTCTGCGGTTGTGTCggg > 1:3094736/1‑70 (MQ=255)
ccACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGt > 1:3930466/1‑70 (MQ=255)
ccACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTc < 1:1400640/71‑1 (MQ=255)
ccACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTG‑GGCTGTGTCGGt > 1:5052111/1‑69 (MQ=255)
ccACTGGTATCACATGGACATGAACTACCGCGGGATGATCAATATGCTGATCTTCTGCGGTTGTGTCgggc < 1:4169593/71‑3 (MQ=255)
ccACTGGTATCACATGGACATGAACTACCGCGGGATGATCAATATGCTGATCTTCTGCGGTTGTGTCgggc < 1:1205448/71‑3 (MQ=255)
cACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCa < 1:1693458/71‑1 (MQ=255)
aCTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCag < 1:3824254/71‑1 (MQ=255)
aCTGGTATCACATGGACATGAACTACCGCGGGATGATCAATATGCTGATCTTCTGCGGTTGTGTCGGGCa > 1:5614519/1‑70 (MQ=255)
gTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCagag < 1:763299/69‑1 (MQ=255)
tCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGc < 1:3514023/67‑1 (MQ=255)
tCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCCGCTGTGTCGGTCAGAGc < 1:577276/67‑1 (MQ=255)
tCACCTCGATATGAACTATCGTGATCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGc < 1:3016432/67‑1 (MQ=255)
cACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGc < 1:5107298/51‑1 (MQ=255)
cACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGc < 1:1675534/51‑1 (MQ=255)
aCCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCgg > 1:1604126/1‑67 (MQ=255)
cGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCt > 1:832257/1‑71 (MQ=255)
gATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTg > 1:1200263/1‑71 (MQ=255)
atatGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCa < 1:267822/55‑1 (MQ=255)
atatGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCgg > 1:3879120/1‑61 (MQ=255)
atatGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGAgg > 1:3948894/1‑61 (MQ=255)
tatGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTggg < 1:4653097/71‑1 (MQ=255)
tGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCag < 1:2083719/53‑1 (MQ=255)
gAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCggg > 1:47930/1‑58 (MQ=255)
aCTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCAc > 1:3275974/1‑71 (MQ=255)
cTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGc > 1:3281777/1‑52 (MQ=255)
tATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCag < 1:2191825/48‑1 (MQ=255)
tATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCag < 1:2566668/48‑1 (MQ=255)
tATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCag < 1:2477942/48‑1 (MQ=255)
aTCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTAt > 1:1231917/1‑71 (MQ=255)
tCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTa < 1:2326530/69‑1 (MQ=255)
tCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATg > 1:2480508/1‑71 (MQ=255)
tCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATg > 1:407809/1‑71 (MQ=255)
tCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGAGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATg < 1:472933/71‑1 (MQ=255)
gTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGt < 1:4566378/71‑1 (MQ=255)
gTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGt < 1:1916905/71‑1 (MQ=255)
tCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGt > 1:806225/1‑70 (MQ=255)
cTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCa > 1:3725610/1‑38 (MQ=255)
cTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCa > 1:4474075/1‑38 (MQ=255)
cTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCa > 1:1198842/1‑38 (MQ=255)
tGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCag < 1:1527186/38‑1 (MQ=255)
aTCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAg > 1:2821760/1‑69 (MQ=255)
aTCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGa < 1:2944028/71‑1 (MQ=255)
aTCAACATGCTGATTTTCTGCGGCTGTGTCGGTCagag < 1:2509602/38‑1 (MQ=255)
tCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTa > 1:5152176/1‑58 (MQ=255)
tCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTa > 1:49515/1‑58 (MQ=255)
tCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTa > 1:2691954/1‑58 (MQ=255)
tCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTa > 1:3851377/1‑58 (MQ=255)
tCAATATGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTa > 1:3857956/1‑58 (MQ=255)
cAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGgc > 1:5581015/1‑51 (MQ=255)
aataTGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaaa < 1:3016967/68‑1 (MQ=255)
aataTGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaaa < 1:4184778/68‑1 (MQ=255)
aataTGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaa > 1:2981445/4‑70 (MQ=255)
aaCATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaaa < 1:3493599/70‑1 (MQ=255)
aaCATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaaa < 1:2167987/70‑1 (MQ=255)
aTGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAg > 1:1262426/1‑58 (MQ=255)
aTGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAg > 1:4690972/1‑58 (MQ=255)
aTGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAg > 1:188112/1‑58 (MQ=255)
aTGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaaaa > 1:4304371/1‑69 (MQ=255)
aTGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaaaa > 1:4464413/1‑69 (MQ=255)
aTGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaaaa > 1:3406557/1‑69 (MQ=255)
tGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCggggg > 1:1402031/1‑37 (MQ=255)
tGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCggggg > 1:1931444/1‑37 (MQ=255)
tGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACt < 1:5102118/51‑1 (MQ=255)
tGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaaaa > 1:4945892/1‑68 (MQ=255)
tGCTGATCTTCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGAAAAACTg > 1:3034003/1‑71 (MQ=255)
atcttCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGaaaaa > 1:3438767/4‑63 (MQ=255)
aTTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCt < 1:3063288/37‑1 (MQ=255)
aTTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCt < 1:5604210/37‑1 (MQ=255)
ttttCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCt < 1:2520814/36‑1 (MQ=255)
ttttCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCt < 1:4352605/36‑1 (MQ=255)
tttCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTgg > 1:2816984/1‑37 (MQ=255)
tttCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCGTCCg > 1:1400618/1‑70 (MQ=255)
cttCTGCGGTTGTGTCGGGCAAAGCGGTGGCGGCTGGGCACACTATGTCGGCCAGGAAAAACTGCGccca > 1:949659/2‑69 (MQ=255)
tCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCGTCCGCa < 1:5222416/70‑1 (MQ=255)
tGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCa > 1:1644431/1‑38 (MQ=255)
tGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAAc > 1:2936667/1‑58 (MQ=255)
tGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAAc > 1:4963301/1‑58 (MQ=255)
gCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGaaa > 1:3734738/1‑54 (MQ=255)
ggCTGTTTCGGTCAGAGCGGGGGCGGCTGGGCGCTCTATGTa > 1:2750740/1‑42 (MQ=38)
ggCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGt > 1:3400123/1‑45 (MQ=255)
ggCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGt > 1:3760021/1‑45 (MQ=255)
|
GGCTGAACCACTGGTATCACCTCGATATGAACTATCGTGGTCTGATCAACATGCTGATTTTCTGCGGCTGTGTCGGTCAGAGCGGGGGCGGCTGGGCGCACTATGTAGGTCAGGAAAAACTGCGTCCGCA > minE/833173‑833302
|
| 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
