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 |
2,931,277 |
A→G |
37.7% |
A57A (GCT→GCC) |
yjgR ← |
predicted ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,931,277 | 0 | A | G | 37.7%
| 25.3
/ 32.5
| 53 | A57A (GCT→GCC) | yjgR | predicted ATPase |
| Reads supporting (aligned to +/- strand): ref base A (25/8); new base G (6/14); total (31/22) |
| Fisher's exact test for biased strand distribution p-value = 1.57e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.36e-01 |
CTTGCGAGCAGTTTTTCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGTTTTAC > minE/2931212‑2931344
|
cTTGCGAGCAGTTTTTCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGc > 1:200951/1‑68 (MQ=255)
tttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCgg < 1:2616172/69‑1 (MQ=255)
tttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCgg < 1:2750616/69‑1 (MQ=255)
tttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCgg < 1:3228539/69‑1 (MQ=255)
tttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCgg < 1:1419529/69‑1 (MQ=255)
ttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGc > 1:976880/1‑69 (MQ=255)
ttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGc > 1:2612624/1‑69 (MQ=255)
ttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGc > 1:714296/1‑69 (MQ=255)
ttttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGc > 1:415406/1‑69 (MQ=255)
tttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCa > 1:1560987/1‑69 (MQ=255)
tttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCa > 1:386608/1‑69 (MQ=255)
tttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCa > 1:1205911/1‑69 (MQ=255)
tttCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCa > 1:1128361/1‑69 (MQ=255)
cgccGTTCCTGCCTGCGCGATACCGGTCAGATCGCCTTTCATATCGGCCATAAACACCGGCACGCCGAt > 1:5826/3‑69 (MQ=255)
cgccGTTCCTGCCTGCGCGATACCGGTCAGATCGCCTTTCACATCGGCCATAAac > 1:1318643/3‑55 (MQ=255)
cgccGTTCCTGCCTGCGCGATACCGGTCAGATCGCCTTTCACATCGGCCATAAACACCGGCACGCCGAt > 1:439266/3‑69 (MQ=255)
cgccGTTCCTGCCTGCGCGATACCGGTCAGATCGCCTTTCACATCGGCCATAAACACCGGCACGCCGAt > 1:3028717/3‑69 (MQ=255)
cgccGTTCCTGCCTGCGCGATACCGGTCAGATCGCCTTTCACATCGGCCATAAACACCGGCACGCCGAt > 1:2686343/3‑69 (MQ=255)
cgccGTTCCTGCCTGCGCGATACCGGTCAGATCGCCTTTCACATCGGCCATAAACACCGGCACGCCGAt > 1:2249141/3‑69 (MQ=255)
acCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGAtt > 1:1095016/1‑69 (MQ=255)
acCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGAtt > 1:586359/1‑69 (MQ=255)
acCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGAtt > 1:616593/1‑69 (MQ=255)
acCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGAtt > 1:1245713/1‑69 (MQ=255)
cctgcGCGACGCCGGTCAGATCGCCTCTCACATCAGCCATAAACACCGGCACGCCGATTTCCGACAAt < 1:2580459/68‑1 (MQ=255)
cgcgACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACt > 1:3219466/1‑68 (MQ=255)
cgcgACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACt > 1:64393/1‑68 (MQ=255)
cgcgACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTc > 1:1373521/1‑69 (MQ=255)
cacaTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGt > 1:19446/1‑69 (MQ=255)
cacaTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGt > 1:42645/1‑69 (MQ=255)
cacaTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGt > 1:1324241/1‑69 (MQ=255)
cacaTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGt > 1:1900123/1‑69 (MQ=255)
cacaTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGt > 1:1209585/1‑69 (MQ=255)
cacaTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGt > 1:107343/1‑69 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTTACAGtttt < 1:1170406/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:3273653/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:669974/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:806985/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:476710/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:868472/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:1595308/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:2218559/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:1697166/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:1824191/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:2687067/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:2044463/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:2602356/69‑1 (MQ=255)
aTCGGCCATAAACACCGGCACGCCGATTTCCGATAGAGACTCCGCCAGTTTTTGCAGCGTGACAGtttt < 1:2353250/69‑1 (MQ=255)
aTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGttt < 1:1564567/68‑1 (MQ=255)
aTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGttt < 1:253691/68‑1 (MQ=255)
aTCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGttt < 1:2084383/68‑1 (MQ=255)
tCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGTTTTa > 1:2913470/1‑69 (MQ=255)
cAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGTTTTAc > 1:3379532/1‑69 (MQ=255)
cAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGTTTTAc > 1:202409/1‑69 (MQ=255)
|
CTTGCGAGCAGTTTTTCCGACACCGTTCCTGCCTGCGCGACGCCGGTCAGATCGCCTTTCACATCAGCCATAAACACCGGCACGCCGATTTCCGACAATGACTCCGCCAGTTTTTGCAGCGTAACGGTTTTAC > minE/2931212‑2931344
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
