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 |
2,403,448 |
G→A |
52.6% |
A135V (GCG→GTG) |
dapF ← |
diaminopimelate epimerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,403,448 | 0 | G | A | 52.6%
| 3.0
/ 86.1
| 97 | A135V (GCG→GTG) | dapF | diaminopimelate epimerase |
| Reads supporting (aligned to +/- strand): ref base G (27/19); new base A (33/18); total (60/37) |
| Fisher's exact test for biased strand distribution p-value = 6.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.75e-01 |
Only 100 of 101 total aligned reads displayed.
TTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGACCAG > minE/2403383‑2403515
|
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2159124/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1000210/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2440756/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1954590/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2666315/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2823932/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1517806/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2108569/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:1345605/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:122122/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:2175336/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:3347166/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:355092/1‑69 (MQ=255)
ttCCCATCGACACCACGCCACATAAGATTCTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACtt > 1:626887/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGtt > 1:1331406/1‑68 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGtt > 1:1337554/1‑68 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:3127892/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2596683/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2599015/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2747737/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2830041/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2995312/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2546491/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2516793/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:3159866/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:791706/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:2413749/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:3218376/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:1200624/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTACACTTTGTTa > 1:791870/1‑69 (MQ=255)
aTCGACACCACGCCACATAAGATTGTCTGCTAGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa > 1:790327/1‑69 (MQ=255)
aTCGACACCACGACACATAAGATTGTCTGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTg > 1:3169480/1‑66 (MQ=255)
gACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAgc > 1:3020558/1‑68 (MQ=255)
gACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAgc > 1:345720/1‑68 (MQ=255)
cacGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGaaa > 1:1130452/1‑69 (MQ=255)
gccgcATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacgg < 1:3054866/69‑1 (MQ=255)
gccgcATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacgg < 1:1451380/69‑1 (MQ=255)
aGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacggcacggc > 1:2590816/1‑67 (MQ=255)
aGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacggcacggc > 1:257105/1‑67 (MQ=255)
aGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAacggcacggc > 1:2234258/1‑67 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:3072584/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:2323888/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:3191070/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:336513/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:915114/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:1060580/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:1459513/69‑1 (MQ=255)
ttGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAg < 1:1105262/69‑1 (MQ=255)
tGCTCGGCGGCTCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:729958/42‑1 (MQ=255)
tGCTCGGCGGCTCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:202777/42‑1 (MQ=255)
tGCTCGGCGGCGCGCTTGATATAGGTCTTTTCCACTTTGTTa < 1:2860530/42‑1 (MQ=255)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:3283970/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1640199/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1189465/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1152570/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1562143/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1275393/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1812577/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1903481/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1953314/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:2025570/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:585684/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:2075113/42‑1 (MQ=38)
tGCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1075029/42‑1 (MQ=38)
gCTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:1901532/41‑1 (MQ=38)
cTCGGCGGCGCGCATGATATAGGTCTTTTCCACTTTGTTa < 1:3274241/40‑1 (MQ=38)
cTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGaa > 1:1791726/1‑69 (MQ=255)
cTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGaa > 1:3421459/1‑69 (MQ=255)
cTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGaa > 1:396122/1‑69 (MQ=255)
cATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGcc < 1:1752164/69‑1 (MQ=255)
cATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGcc < 1:3268897/69‑1 (MQ=255)
cATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGcc < 1:3181556/69‑1 (MQ=255)
tataGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCata > 1:2168000/1‑68 (MQ=255)
tataGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCata > 1:3173202/1‑68 (MQ=255)
tataGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCata > 1:2164129/1‑68 (MQ=255)
tataGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCata > 1:2516388/1‑68 (MQ=255)
tCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTAcg > 1:1481972/1‑68 (MQ=255)
tCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTAcg > 1:2939712/1‑68 (MQ=255)
ttttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:1007983/1‑69 (MQ=255)
ttttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:1445259/1‑69 (MQ=255)
ttttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:1078330/1‑69 (MQ=255)
ttttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:1680935/1‑69 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:1484303/1‑67 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:2476589/1‑67 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:405998/1‑67 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:2323351/1‑67 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:2047085/1‑67 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:617605/1‑67 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:1104739/1‑67 (MQ=255)
ttCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCgg > 1:6570/1‑67 (MQ=255)
ccGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGAc < 1:1756511/67‑1 (MQ=255)
ccGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGAc < 1:803092/67‑1 (MQ=255)
ccGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGAc < 1:2154288/67‑1 (MQ=255)
ccGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGAc < 1:1589659/67‑1 (MQ=255)
ccGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGAc < 1:1600244/67‑1 (MQ=255)
ccGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGAc < 1:1781455/67‑1 (MQ=255)
gCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGACCAg < 1:504263/68‑1 (MQ=255)
gCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGACCAg < 1:1111092/68‑1 (MQ=255)
gCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGACCAg < 1:3310183/68‑1 (MQ=255)
gCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGACCAg < 1:1420688/68‑1 (MQ=255)
|
TTCCCATCGACACCACGCCGCATAAGATTGTCTGCTCGGCGGCGCGCATAATATAGGTCTTTTCCGCTTTGTTAGCGCGAAACGGCACGGCGGAAGGTTCGAAGTTGGGTTCGCCCATATTTACGCGGACCAG > minE/2403383‑2403515
|
| 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
