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 |
1,238,425 |
A→G |
43.5% |
T32T (ACT→ACC) |
edd ← |
6‑phosphogluconate dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,238,425 | 0 | A | G | 43.5%
| 13.8
/ 53.3
| 69 | T32T (ACT→ACC) | edd | 6‑phosphogluconate dehydratase |
| Reads supporting (aligned to +/- strand): ref base A (25/14); new base G (19/11); total (44/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCAGCGAAACCGTGTGCCAGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGTCTCGCGCG > minE/1238369‑1238474
|
gcagCGAAACCGTGTGCCAGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGt < 1:1395415/69‑1 (MQ=255)
gtgCCAGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCgg > 1:1498241/1‑65 (MQ=255)
gtgCCAGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCgg > 1:3365327/1‑65 (MQ=255)
aGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGGGAGATa < 1:3459/68‑1 (MQ=255)
aGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATa < 1:871073/68‑1 (MQ=255)
aGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATa < 1:2877330/68‑1 (MQ=255)
tACCGGATGCCAACTGAGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:2760698/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1060189/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:2195764/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1837184/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:2262676/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1748492/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1665673/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:3041987/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:3156561/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:3374211/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1629716/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:3417863/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:342942/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:368389/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1284040/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1151847/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:701109/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1131239/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAGGTTTTCGCTTGTTCTATc > 1:1008576/1‑53 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCag > 1:373941/1‑69 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCag > 1:956171/1‑69 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCag > 1:2159755/1‑69 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCag > 1:2064023/1‑69 (MQ=255)
tACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCag > 1:1632467/1‑69 (MQ=255)
aTGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAg < 1:812179/69‑1 (MQ=255)
aTGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAg < 1:2213628/69‑1 (MQ=255)
aTGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAg < 1:1818946/69‑1 (MQ=255)
aTGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAg < 1:2382978/69‑1 (MQ=255)
aTGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAg < 1:3341196/69‑1 (MQ=255)
aTGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAg < 1:1661228/69‑1 (MQ=255)
tGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAg < 1:3051970/68‑1 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:3257711/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:1065135/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:1145512/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:48280/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:467466/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:409852/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:3227927/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:2977130/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:1988991/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:1873665/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:1849443/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:2810939/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:1661476/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtct > 1:301222/1‑69 (MQ=255)
ccAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGtc > 1:813580/1‑68 (MQ=255)
tGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTc < 1:1574055/35‑1 (MQ=255)
tGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTc < 1:1336601/35‑1 (MQ=255)
tGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTc < 1:1654862/35‑1 (MQ=255)
gCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGTCTcgcgcg > 1:2055635/1‑69 (MQ=255)
gCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGTCTcgcgcg > 1:880344/1‑69 (MQ=255)
gCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGTCTcgcgcg > 1:3094379/1‑69 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:2548825/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:1114819/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:2209792/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:2213931/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:1653116/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:1171209/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:371877/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:348606/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:1425416/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:1515228/43‑1 (MQ=255)
cGGTCGAGGTTTTCGCTTGTTCTATCCGGGCGAGGTAAGCaga < 1:1747400/43‑1 (MQ=255)
|
GCAGCGAAACCGTGTGCCAGGTTACCGCATGCCAACTGCGAACGATGAACGGTCGAAGTTTTCGCTTGTTCTATCCGGGCGAGATAAGCAGAGCGAGTCTCGCGCG > minE/1238369‑1238474
|
| 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
