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 |
2,155,605 |
C→T |
41.7% |
intergenic (+116/+70) |
dacB → / ← obgE |
D‑alanyl‑D‑alanine carboxypeptidase/GTPase involved in cell partioning and DNA repair |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,155,605 | 0 | C | T | 41.7%
| 105.3
/ 77.3
| 72 | intergenic (+116/+70) | dacB/obgE | D‑alanyl‑D‑alanine carboxypeptidase/GTPase involved in cell partioning and DNA repair |
| Reads supporting (aligned to +/- strand): ref base C (31/11); new base T (16/14); total (47/25) |
| Fisher's exact test for biased strand distribution p-value = 8.44e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.16e-01 |
TTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTATCATCAG > minE/2155545‑2155671
|
ttGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAAt > 1:1546328/1‑71 (MQ=255)
tGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACatat > 1:5692738/1‑64 (MQ=40)
tGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACatat > 1:276101/1‑64 (MQ=40)
tGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTg < 1:4561491/71‑1 (MQ=255)
gATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGc > 1:444215/1‑56 (MQ=255)
gATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCa > 1:3612334/1‑57 (MQ=255)
tGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATtc‑t < 1:891784/60‑1 (MQ=255)
tGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCt < 1:5120457/71‑1 (MQ=255)
cggcgTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCt > 1:253713/1‑70 (MQ=11)
cggcgTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTg < 1:2459078/71‑1 (MQ=14)
cgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTg < 1:695466/59‑1 (MQ=255)
cgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGa > 1:2469852/1‑68 (MQ=255)
cgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGAt > 1:2812655/1‑69 (MQ=255)
cgTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATa < 1:1772080/71‑1 (MQ=14)
tAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGc < 1:5697768/47‑1 (MQ=255)
tAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTg < 1:1200361/57‑1 (MQ=255)
aaCGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTa > 1:3049852/1‑57 (MQ=255)
aaCGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCg > 1:4316326/1‑71 (MQ=11)
aCGCCTTATCCGGCCTACAAAATCGTGCTAATTCAACATATTGCAATTC‑TCTTg < 1:3097118/54‑1 (MQ=255)
aCGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTg < 1:5603832/54‑1 (MQ=255)
aCGCCTTATCCGGCCTACAAAATCCTGCAAATTCAACATATTGCAATTC‑TCTTg < 1:3922463/54‑1 (MQ=255)
cGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCgca < 1:775285/71‑3 (MQ=11)
cTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAgcg > 1:1525361/1‑70 (MQ=255)
aTCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATtc‑t > 1:4672749/1‑43 (MQ=255)
aTCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCAt > 1:2995949/1‑70 (MQ=255)
aTCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCAt > 1:2438123/1‑71 (MQ=11)
tCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATtc‑t > 1:1891833/1‑42 (MQ=255)
tCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATc < 1:218615/71‑1 (MQ=11)
ccGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGt > 1:4635591/1‑46 (MQ=255)
gCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGc < 1:2681351/71‑1 (MQ=11)
gCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGc < 1:4763606/71‑1 (MQ=11)
cTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAg > 1:5235795/1‑58 (MQ=255)
cTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAg > 1:5233610/1‑58 (MQ=255)
tACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGcaat > 1:5363373/1‑68 (MQ=0)
aCAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGAtt > 1:381283/1‑71 (MQ=255)
cataaTCTTGAAAATTCAATATATTGCAGTTA‑TCTGGTAGGCCAGGTAAGCGTAGCGCATc > 1:3137942/4‑61 (MQ=2)
cataaTCTTGAAAATTCAATATATTGCAGTTA‑TCTGGTAGGCCAGGTAAGCGTAGCGCATc > 1:4678403/4‑61 (MQ=2)
cataaTCTTGAAAATTCAATATATTGCAGTTA‑TCTGGTAGGCCAGGTAAGCGTAGCGCATc > 1:2272322/4‑61 (MQ=2)
cAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGAttt > 1:623795/1‑71 (MQ=255)
cAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGcaat < 1:1641788/69‑4 (MQ=0)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGAttt > 1:1547663/1‑70 (MQ=255)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGAttt > 1:1090193/1‑70 (MQ=255)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTg > 1:3142566/1‑71 (MQ=255)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTg > 1:3810780/1‑71 (MQ=255)
aaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGt > 1:3145127/1‑35 (MQ=255)
aaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCAt > 1:2970338/1‑57 (MQ=255)
aaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGc > 1:4833084/1‑71 (MQ=255)
aatgTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGC‑AATTTGGCg < 1:4549032/68‑1 (MQ=2)
aTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGc > 1:724251/1‑38 (MQ=255)
tCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGAtt < 1:1816328/65‑1 (MQ=255)
cgCAAATTCAATAGATTGCAATGC‑ACTTGTAGGCCTGATAAGc > 1:4031576/2‑43 (MQ=11)
cgCAAATTCAATAGATTGCAATGC‑ACTTGTAGGCCTGATAAGCg > 1:4014754/2‑44 (MQ=11)
cgCAAATTCAATAGATTGCAATGC‑ACTTGTAGGCCTGATAAGCg > 1:3318039/2‑44 (MQ=11)
cAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGAt > 1:1325812/1‑38 (MQ=9)
cAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATaa > 1:4732087/1‑40 (MQ=9)
cAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCa < 1:830321/53‑1 (MQ=11)
cAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGC‑AATTTGGCGttgcc < 1:1749085/70‑4 (MQ=2)
cAAATTAAATAAATTGCAATTCAACTTGTAGGCCTGATaa > 1:4538888/1‑40 (MQ=9)
aaaTTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGC‑AATTTGGCGtt < 1:163315/66‑1 (MQ=2)
aaaTTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTatca > 1:4118040/1‑71 (MQ=255)
aaaTTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTatca > 1:3386257/1‑71 (MQ=255)
aaTTCAATAAATTGCAATTCATCTTGTAGGCCTGATAAGCGCAGCGCATCAGGC‑AATTTGGCGtt < 1:2665475/65‑1 (MQ=11)
aTTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGc < 1:495751/39‑1 (MQ=2)
aTTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGc < 1:5051387/39‑1 (MQ=2)
aTTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGcaa > 1:3344038/1‑53 (MQ=0)
aTTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGC‑AATTTGGCGttgc > 1:1678013/1‑64 (MQ=2)
aTTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTatcat > 1:4919494/1‑70 (MQ=255)
aTTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTatcat > 1:5502185/1‑70 (MQ=255)
ttCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCg > 1:3941578/1‑39 (MQ=2)
ttCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCt < 1:1600126/52‑1 (MQ=255)
tCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTATCATCAg > 1:5525137/1‑71 (MQ=255)
tCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTATCATCAg > 1:5107934/1‑71 (MQ=255)
cATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTa < 1:5125964/60‑1 (MQ=255)
cATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTa < 1:1990295/60‑1 (MQ=255)
|
TTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGTTTATCATCAG > minE/2155545‑2155671
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
