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 |
1,433,227 |
T→C |
38.1% |
L360L (CTA→CTG) |
mqo ← |
malate dehydrogenase, FAD/NAD(P)‑binding domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,433,227 | 0 | T | C | 38.1%
| 37.1
/ 48.8
| 76 | L360L (CTA→CTG) | mqo | malate dehydrogenase, FAD/NAD(P)‑binding domain |
| Reads supporting (aligned to +/- strand): ref base T (28/19); new base C (16/13); total (44/32) |
| Fisher's exact test for biased strand distribution p-value = 8.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAC > minE/1433170‑1433292
|
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:1551264/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:2095028/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:2284516/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:19870/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:2418889/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:1788731/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:1621809/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:812980/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:155792/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:3388460/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:1488436/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:378131/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:1158938/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:117150/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:1372145/1‑68 (MQ=255)
aTTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCcaca > 1:93039/1‑68 (MQ=255)
catcatCGGCATCACGTTAGAGGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGaa < 1:1475709/69‑1 (MQ=255)
catcatCGGCATCACGTTAGAGGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGaa < 1:3166572/69‑1 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:824609/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:2184293/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:2338106/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:894268/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:195407/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:567214/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:415430/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:490371/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:1409279/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:1514857/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:1441139/68‑3 (MQ=255)
cGGCATCACGTTAGAGGTGGTGGTGGAACTCATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:429851/68‑3 (MQ=255)
agGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCa < 1:2503205/68‑1 (MQ=255)
agGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCa < 1:2763331/68‑1 (MQ=255)
agGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCa < 1:1074684/68‑1 (MQ=255)
agGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCa < 1:660577/68‑1 (MQ=255)
agGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCa < 1:1473788/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:2080293/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:2006934/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:777308/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:1914602/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:1258431/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:1446664/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:1707543/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:2987222/68‑1 (MQ=255)
ggtggtggtGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCaa < 1:3007740/68‑1 (MQ=255)
gtggtggtgGAACTCATTAGATCCCTCAATGAACCGTTTTTGAGGAATTTGGTTGAGAATGTGGCAAAt > 1:2848542/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGTAAAt > 1:1513510/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:853172/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:772644/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:577587/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:1459096/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:2403129/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:2489773/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:1744135/1‑69 (MQ=255)
gtggtggtgGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAAt > 1:2832202/1‑69 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:407241/1‑68 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:1849097/1‑68 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:3032728/1‑68 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:2898328/1‑68 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:3355456/1‑68 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:1567940/1‑68 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:3233967/1‑68 (MQ=255)
gtggtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATgg > 1:822255/1‑68 (MQ=255)
gtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCa > 1:2755994/1‑69 (MQ=255)
gtggAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCa > 1:1608314/1‑69 (MQ=255)
aaCTAATCAGATCCCACAATGAACCGTTTTTGAGGAAtttag < 1:2952085/42‑3 (MQ=38)
aCTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTTGTTGAGAAGGTGGCAAATGGCCCAAACAg < 1:897819/69‑1 (MQ=255)
aCTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAg > 1:1101436/1‑69 (MQ=255)
aCTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAg < 1:3349037/69‑1 (MQ=255)
aCTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAg < 1:3179364/69‑1 (MQ=255)
cATTAGATCCCTCAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAc > 1:1965585/1‑69 (MQ=255)
cATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAACCAGCAc > 1:97800/1‑69 (MQ=255)
cATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAc > 1:2727975/1‑69 (MQ=255)
cATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAc > 1:2031334/1‑69 (MQ=255)
cATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAc > 1:1374488/1‑69 (MQ=255)
cATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAc > 1:1283397/1‑69 (MQ=255)
cATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAc > 1:959421/1‑69 (MQ=255)
|
ATTATCCAGCCCGACGTGCATCATCGGCATCACGTTAGAGGTGGTGGTGGAACTCATTAGATCCCACAATGAACCGTTTTTGAGGAATTTGGTTGAGAAGGTGGCAAATGGCCCAAACAGCAC > minE/1433170‑1433292
|
| 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
