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 |
2,321,385 |
T→C |
40.3% |
A197A (GCA→GCG) |
cdh ← |
CDP‑diacylglycerol phosphotidylhydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,321,385 | 0 | T | C | 40.3%
| 24.8
/ 46.0
| 67 | A197A (GCA→GCG) | cdh | CDP‑diacylglycerol phosphotidylhydrolase |
| Reads supporting (aligned to +/- strand): ref base T (26/14); new base C (14/13); total (40/27) |
| Fisher's exact test for biased strand distribution p-value = 3.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGCCGTACCATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTATTC > minE/2321325‑2321450
|
ctGCCGTACCATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGcat < 1:1010635/69‑1 (MQ=255)
ctGCCGTACCATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGcat < 1:2497268/69‑1 (MQ=255)
ctGCCGTACCATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGcat < 1:1832501/69‑1 (MQ=255)
ccATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAAt > 1:1490559/1‑68 (MQ=255)
ccATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATg > 1:2674131/1‑69 (MQ=255)
ccATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATg > 1:487657/1‑69 (MQ=255)
ccATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATg > 1:420988/1‑69 (MQ=255)
aTCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATggg > 1:633812/1‑69 (MQ=255)
aTCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATggg > 1:1247582/1‑69 (MQ=255)
cAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCg > 1:1590753/1‑69 (MQ=255)
cAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCg > 1:141419/1‑69 (MQ=255)
aGCCCGTAGCTTCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATaaa > 1:2992349/1‑59 (MQ=255)
aGCCCGTAGCTTCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGt > 1:2650792/1‑69 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGtt > 1:885909/1‑63 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:2673465/1‑64 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:2378737/1‑64 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:1082960/1‑64 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:3087405/1‑64 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:3193586/1‑64 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:3219899/1‑64 (MQ=255)
aGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:781128/1‑64 (MQ=255)
aGCGTCCAATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTg > 1:3039529/1‑64 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTAcc > 1:2573139/1‑64 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGtt > 1:207651/1‑68 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:39915/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:651453/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:2583885/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:2499849/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:2380685/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:915751/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:2134333/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:1787286/1‑69 (MQ=255)
tCCCATATGTTCCCGCGCCTCAAGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTc > 1:159385/1‑69 (MQ=255)
tCCAATATGTTCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATa > 1:2241052/1‑46 (MQ=255)
atGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTc > 1:807078/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:2852036/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:2210830/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:778200/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:260452/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:1218312/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:1392191/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:136979/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATa < 1:3313722/39‑1 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:1114926/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:2854855/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:1648344/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:3257549/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:2067098/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:2374702/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:512162/1‑69 (MQ=255)
tGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTcc > 1:1187551/1‑69 (MQ=255)
ttCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:2949235/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:1295046/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:3197372/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:3182236/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:3130913/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:1426683/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:1210120/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:801580/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:2944089/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:2304793/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:1665727/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:1996764/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGt < 1:2502114/69‑1 (MQ=255)
ttCCCGCGCCTCAGGCACTTCTTCCGCCAGCATCATAAATGGGCTGCGTTGTACAAGTTCGCTTTCCGt < 1:2136106/69‑1 (MQ=255)
ccGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGtt < 1:1964907/67‑1 (MQ=255)
gTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGcc < 1:2078769/68‑1 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:1202635/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:2264634/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:535914/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:232768/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:1236906/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:2202107/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:2406352/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:2487912/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:2142916/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:1177133/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:3129721/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCg > 1:2789392/1‑41 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTAtt > 1:2171689/1‑69 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTAtt > 1:2402911/1‑69 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTAtt > 1:551143/1‑69 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTAtt > 1:2122005/1‑69 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTAtt > 1:1966461/1‑69 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTAtt > 1:2985724/1‑69 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTT‑TACCAGTTCGCTTTCCGTTACCCGAcgcg > 1:2025838/1‑59 (MQ=255)
cttctGCCAGCATCATAAATGGGCTGCGTT‑TACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTATTc > 1:2022019/1‑69 (MQ=255)
|
CTGCCGTACCATCGCCAGCCCGTAGCGTCCCATATGTTCCCGCGCCTCAGGTACTTCTTCTGCCAGCATCATAAATGGGCTGCGTTGTACCAGTTCGCTTTCCGTTACCCGACGCGCCAGGTATTC > minE/2321325‑2321450
|
| 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
