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 |
1,014,533 |
G→A |
33.5% |
A512A (GCC→GCT) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,014,533 | 0 | G | A | 33.5%
| 80.0
/ 55.9
| 72 | A512A (GCC→GCT) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base G (28/19); new base A (11/13); total (39/33) |
| Fisher's exact test for biased strand distribution p-value = 3.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATA > minE/1014464‑1014597
|
gaagaaGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATg < 1:3396548/70‑1 (MQ=255)
gaagaaGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATg > 1:1281765/1‑70 (MQ=255)
aagTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTc > 1:3585077/1‑71 (MQ=255)
agTCGTTACCTTTGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTc < 1:1851522/70‑1 (MQ=255)
tCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCAt > 1:1554285/1‑71 (MQ=255)
cATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCAtt > 1:3199116/1‑71 (MQ=255)
tttCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTcc > 1:489388/1‑71 (MQ=255)
tttGTCATCGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCAt < 1:5383765/63‑1 (MQ=255)
ttgtcatcGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAGCTc > 1:1254032/4‑71 (MQ=255)
atcGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAGCTCCGGa > 1:2639127/1‑70 (MQ=255)
atcGACCAGGATAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAGCTCCGGa > 1:5086069/1‑70 (MQ=255)
ccACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTccc > 1:2747386/1‑59 (MQ=255)
cacaAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGatat > 1:1079912/1‑70 (MQ=255)
cacaAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGatat > 1:1175426/1‑70 (MQ=255)
cacaAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATAtt > 1:453674/1‑71 (MQ=255)
acaAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTcc < 1:2981343/56‑1 (MQ=255)
aaGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTc > 1:5501114/1‑69 (MQ=255)
aGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCa > 1:1172567/1‑49 (MQ=255)
tAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCtt < 1:4758803/42‑1 (MQ=255)
tAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCa > 1:126505/1‑51 (MQ=255)
tAAACGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCa > 1:119644/1‑51 (MQ=255)
tAAACGCCGGGAAATCTTCTACTTCGATTTTCAAGATAGCTTCCATACCCAGCTCCGGa > 1:275311/1‑59 (MQ=255)
tAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCg < 1:1877283/57‑1 (MQ=255)
tAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACAt > 1:2076490/1‑71 (MQ=255)
aaCGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCaa < 1:10312/64‑1 (MQ=255)
aCGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCa > 1:1908448/1‑42 (MQ=255)
aCGCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATAcc > 1:4521493/1‑46 (MQ=255)
cGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCa < 1:4032262/71‑1 (MQ=255)
cGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCa < 1:4026277/71‑1 (MQ=255)
cGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCa < 1:358922/71‑1 (MQ=255)
gCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCtt < 1:4636530/37‑1 (MQ=37)
gCCGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAg > 1:4561960/1‑47 (MQ=255)
cGGGAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAGCTCCGGATAAGCGACGCACTCCAgat < 1:1093234/71‑3 (MQ=255)
cGGGAAATCTTCTACTTCGATTTTCCAGATAGATTcc > 1:1111159/1‑37 (MQ=25)
gggAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGct < 1:2595090/71‑1 (MQ=255)
ggAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAgc < 1:450747/44‑2 (MQ=255)
ggAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAgc < 1:878322/44‑2 (MQ=255)
ggAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAgc < 1:3154114/44‑2 (MQ=255)
ggAAATCTTCTACTTCGATTTTCCAGATAGCTTCCATACCCAGCTCCg < 1:3488393/48‑1 (MQ=255)
ggAAATCTTCTACTTCGATTTTCCAGATAGATTCCATACCCAGCTCCGGATAAGCGACGCACTCCAgatg > 1:5477308/1‑67 (MQ=255)
aaaTCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTc < 1:1354722/44‑1 (MQ=255)
aaaTCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTc < 1:4764458/44‑1 (MQ=255)
aaaTCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCtt < 1:1585056/71‑1 (MQ=255)
cTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATa > 1:5071271/1‑71 (MQ=255)
ttCTACTTCGATTTTCCAGATAGCTTCCATACCCAGCTcc < 1:4732056/40‑1 (MQ=255)
ttCTACTTCGATTTTCCAGATAGCTTCCATACCCAGCTcc < 1:2219373/40‑1 (MQ=255)
ttCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTc < 1:351022/48‑1 (MQ=255)
ttCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTc < 1:1886663/48‑1 (MQ=255)
ttCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATa > 1:3467154/1‑70 (MQ=255)
cACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAgg > 1:5163477/1‑58 (MQ=255)
cACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATa > 1:3412052/1‑67 (MQ=255)
cACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATa > 1:388147/1‑67 (MQ=255)
cACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACtt < 1:4335428/70‑1 (MQ=255)
cACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATAATCAACACATTCCAGGCTCTTAATACtt < 1:2827364/70‑1 (MQ=255)
cACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCAGGATATTCAACACATTCCAgg > 1:3877106/1‑58 (MQ=255)
cACTTCAATTTTCCAGATGGCTTCCACTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTc > 1:5353610/1‑71 (MQ=255)
aCTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTGAACACATTCCAGGCTCTTAATACTTcc > 1:5670052/1‑71 (MQ=255)
aCTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTcc > 1:3431314/1‑71 (MQ=255)
cTTCGATTTTCCAGATAGCTTCCATACCCAGCTCCGGat < 1:5003720/39‑1 (MQ=25)
cTTCGATTTTCCAGATAGCTTCCATACCCAGCTCCGGat < 1:3316729/39‑1 (MQ=25)
cTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGc < 1:499907/57‑1 (MQ=255)
ttCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAgg > 1:1280102/1‑55 (MQ=255)
cAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCaa > 1:3713759/1‑42 (MQ=255)
cAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAgg > 1:1895583/1‑53 (MQ=255)
cAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAg > 1:4543578/1‑52 (MQ=255)
ttttCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCa < 1:2060825/48‑1 (MQ=255)
ttttCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCa < 1:3468184/48‑1 (MQ=255)
ttttCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATa > 1:4637325/1‑59 (MQ=255)
ttttCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTgcgc > 1:4608584/1‑70 (MQ=255)
tttCCAGATGGCTTCCATTCCCAGTTCCGGATATTc < 1:5380084/36‑1 (MQ=255)
ttCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACtt > 1:5137394/1‑60 (MQ=255)
ttCCAGAT‑GCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCaa < 1:839897/70‑1 (MQ=255)
cAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATa < 1:4875235/70‑1 (MQ=255)
aTGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTaa > 1:1433669/1‑49 (MQ=255)
|
GAAGAAGTCATTTCCTTTATCATCCACAAGGATAAACGCCGGGAAATCTTCCACTTCAATTTTCCAGATGGCTTCCATTCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATA > minE/1014464‑1014597
|
| 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
