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 |
2,643,235 |
C→T |
23.5% |
S289S (AGC→AGT) |
gntR → |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,643,235 | 0 | C | T | 23.5%
| 129.7
/ 29.8
| 97 | S289S (AGC→AGT) | gntR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base C (64/10); new base T (17/6); total (81/16) |
| Fisher's exact test for biased strand distribution p-value = 1.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.33e-01 |
ATGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGGCGCGTATTCGT > minE/2643173‑2643298
|
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCt > 1:947489/1‑68 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCt > 1:1317425/1‑68 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:990714/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:1694189/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:1833459/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:192781/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:2462909/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:2788123/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:1384378/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:3112810/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:3292374/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:476460/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:94004/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:502155/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:746865/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:658471/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:662445/1‑69 (MQ=255)
atGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGCAGCCACGACTTGCGAGCGTGCTg > 1:911245/1‑69 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTg > 1:3016069/1‑68 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGa > 1:3265867/1‑69 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGa > 1:2637344/1‑69 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGa > 1:1405387/1‑69 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGa > 1:1194849/1‑69 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGa > 1:1345610/1‑69 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGa > 1:3243700/1‑69 (MQ=255)
tGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGACACGACTTGCGAGCGTGCTGa > 1:2550191/1‑69 (MQ=255)
gCGATTGCTGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAc > 1:1835586/1‑68 (MQ=255)
gCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAcg > 1:2859059/1‑69 (MQ=255)
gCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAcg > 1:1987640/1‑69 (MQ=255)
gCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAcg > 1:1012887/1‑69 (MQ=255)
gCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAcg > 1:1542267/1‑69 (MQ=255)
gCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAcg > 1:1367763/1‑69 (MQ=255)
gCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAcgccgc > 1:1313419/1‑67 (MQ=255)
gCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGAcgccgc > 1:2757157/1‑67 (MQ=255)
tttCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg < 1:2990923/69‑1 (MQ=255)
tttCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg < 1:1524025/69‑1 (MQ=255)
ttCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCgg > 1:3160522/1‑69 (MQ=255)
ttCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCgg > 1:261935/1‑69 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGc > 1:858166/1‑60 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:1724779/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:1000795/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:949166/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:1070188/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:1286013/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:2984798/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:2540857/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:2088768/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCg > 1:1674980/1‑61 (MQ=255)
gTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGc > 1:1769220/1‑68 (MQ=255)
tCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAg < 1:724212/69‑1 (MQ=255)
tCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAg < 1:1134023/69‑1 (MQ=255)
tCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAg < 1:1536080/69‑1 (MQ=255)
tCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAg < 1:3078025/69‑1 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTg > 1:1266263/1‑55 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTTAGCGGATGGGCAgc > 1:1858952/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:877554/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:782231/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:1190770/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:119979/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:1217081/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:3346724/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:1564879/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:1372677/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:1529842/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:2728846/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:2354654/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:253562/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:142676/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAgc > 1:211411/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGGCTAGCGAGTGTGCTGACGCCGCGTGAGCGGATGGGCAg > 1:3206533/1‑68 (MQ=255)
cATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAg < 1:1022789/68‑1 (MQ=255)
aCATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTAtt > 1:2817219/1‑68 (MQ=255)
aCATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTg > 1:3291843/1‑69 (MQ=255)
aCATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTg > 1:2128549/1‑69 (MQ=255)
aCATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTg > 1:2756541/1‑69 (MQ=255)
aCATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTg > 1:2451265/1‑69 (MQ=255)
aCATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTg > 1:1038837/1‑69 (MQ=255)
aCATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTg > 1:289768/1‑69 (MQ=255)
tGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGgcg > 1:264079/1‑68 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:2072902/1‑69 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:750076/1‑69 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:1738030/1‑69 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:486432/1‑69 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:450925/1‑69 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:1400425/1‑69 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:2044754/1‑69 (MQ=255)
gCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGgc > 1:2884004/1‑69 (MQ=255)
cGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGt < 1:659653/42‑1 (MQ=255)
gACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGGCGCGTa > 1:1686630/1‑69 (MQ=255)
cTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGGCGCGTAtt < 1:1500680/69‑1 (MQ=255)
cTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGGCGCGTAtt < 1:2750548/69‑1 (MQ=255)
gAGTGTGCTGACGTCGCGTGAGCGGATGGGCAGCATTGGCGCTGAGCGCCTGCTGGCGCGTATTCGt < 1:2131160/67‑1 (MQ=255)
gAGTGTGCTGACGCCGCGTGAGCGGATGGGCAGCATTGGCGCTGAGCGCCTGCTGGCGCGTATTCGt < 1:67451/67‑1 (MQ=255)
gAGTGTGCTGACGCCGCGTGAGCGGATGGGCAGCATTGGCGCTGAGCGCCTGCTGGCGCGTATTCGt < 1:693394/67‑1 (MQ=255)
gAGTGTGCTGACGCCGCGTGAGCGGATGGGCAGCATTGGCGCTGAGCGCCTGCTGGCGCGTATTCGt < 1:699286/67‑1 (MQ=255)
gAGTGTGCTGACGCCGCGTGAGCGGATGGGCAGCATTGGCGCTGAGCGCCTGCTGGCGCGTATTCGt < 1:1126509/67‑1 (MQ=255)
gAGTGTGCTGACGCCGCGTGAGCGGATGGGCAGCATTGGCGCTGAGCGCCTGCTGGCGCGTATTCGt < 1:2931268/67‑1 (MQ=255)
|
ATGGCGATTGCCGGTTTCCACGGTCATGACATTGGTCAGGTGATGGAGCCACGACTTGCGAGCGTGCTGACGCCGCGTGAGCGGATGGGCAGTATTGGCGCTGAACGCCTGCTGGCGCGTATTCGT > minE/2643173‑2643298
|
| 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
