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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
827,597 |
C→T |
100% |
P26P (CCG→CCA) |
ybhS ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 827,597 | 0 | C | T | 93.2%
| 124.0
/ 1.3
| 44 | P26P (CCG→CCA) | ybhS | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (0/3); new base T (28/13); total (28/16) |
| Fisher's exact test for biased strand distribution p-value = 4.23e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGA > W3110S.gb/827533‑827656
|
tAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcg > 1:650100/1‑71 (MQ=255)
tAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcg > 1:3049717/1‑71 (MQ=255)
tAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcg > 1:2411772/1‑71 (MQ=255)
aaTGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcgc > 1:3378139/1‑71 (MQ=255)
aaTGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcgc > 1:3377778/1‑71 (MQ=255)
aaTGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcgc > 1:3215055/1‑71 (MQ=255)
aTGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcgcg < 1:2983993/71‑1 (MQ=255)
aTGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATcgcg < 1:132138/71‑1 (MQ=255)
cGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACg < 1:3081058/71‑1 (MQ=255)
cGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACg < 1:2505982/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGa < 1:830797/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGa < 1:2896638/71‑1 (MQ=255)
gTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGa < 1:761324/71‑1 (MQ=255)
aCCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCt > 1:485654/1‑71 (MQ=255)
aaTAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCcgcg > 1:1609677/1‑71 (MQ=255)
agcagTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCttt < 1:3066363/71‑1 (MQ=255)
gTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACg > 1:3286712/1‑71 (MQ=255)
gggATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAgcgc > 1:314093/1‑71 (MQ=255)
gATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCt > 1:1436154/1‑44 (MQ=255)
gATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCAGAGCGccc > 1:936403/1‑71 (MQ=255)
gATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGccc > 1:1175676/1‑71 (MQ=255)
gATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGccc > 1:3189275/1‑71 (MQ=255)
gATCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGccc > 1:1622094/1‑71 (MQ=255)
gATCACTACCGCAATCAGCCAGCTACTTAGATCGCGAACGATATGCCGCGTCTCTTTAACGCACAGCGccc > 1:2587221/1‑71 (MQ=255)
aTCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGAt > 1:3340371/1‑41 (MQ=255)
aTCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCg < 1:1078599/71‑1 (MQ=255)
tCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCttt < 1:902129/55‑1 (MQ=255)
tCACTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCttt < 1:3153121/55‑1 (MQ=255)
tCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGcac < 1:1020007/62‑1 (MQ=255)
tCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGcac < 1:3219251/62‑1 (MQ=255)
tCACTACCGCAATCAGCCAGCTACTCGGATCGCCAACGATCTGCCGCGTCTCTTTAACGcac < 1:2556031/62‑1 (MQ=255)
cTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCt < 1:1762169/39‑1 (MQ=255)
cTACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCt < 1:1620901/39‑1 (MQ=255)
tACCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTAcgc > 1:1162516/1‑71 (MQ=255)
aCCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTAcgc > 1:3619933/1‑70 (MQ=255)
aCCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTAcgc > 1:379477/1‑70 (MQ=255)
aCCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTAcgc > 1:2763602/1‑70 (MQ=255)
aCCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTAcgc > 1:2799518/1‑70 (MQ=255)
aCCGCAATCAGCCAGCTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTAcgc > 1:283083/1‑70 (MQ=255)
cagccagcTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCcag > 1:3276171/1‑70 (MQ=255)
cagccagcTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCcag > 1:114772/1‑70 (MQ=255)
cagccagcTACTTGGATCGCGAACGATCTGCCGCGGCTCTTTAAc > 1:1925477/1‑45 (MQ=255)
agccagcTACTTGGATCGCGAACGATCTGCCGCGt > 1:80760/1‑35 (MQ=255)
agccagcTACTTGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCcagga > 1:758033/1‑71 (MQ=255)
|
TAATGCCGTAACCAAAAATAAACAGCAGTAGCAGCGGGATCACTACCGCAATCAGCCAGCTACTCGGATCGCGAACGATCTGCCGCGTCTCTTTAACGCACAGCGCCCGTACGCGACGCCAGGA > W3110S.gb/827533‑827656
|
| 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
