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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
309,859 |
G→A |
13.0% |
T1005I (ACC→ATC) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 309,859 | 0 | G | A | 13.0%
| 200.9
/ 17.8
| 77 | T1005I (ACC→ATC) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base G (37/30); new base A (6/4); total (43/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
CACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGCCGAGGATAA > minE/309792‑309928
|
cacaAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTAc > 1:968756/1‑71 (MQ=255)
acaAAGAACACCGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATAcc > 1:3566960/1‑71 (MQ=255)
aaaGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTa > 1:1611431/1‑71 (MQ=255)
aGAACACCGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATAccca > 1:185324/1‑67 (MQ=255)
gAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTg > 1:1474655/1‑71 (MQ=255)
acaCCGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATACCCACAGCg < 1:3082222/69‑1 (MQ=255)
aTACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCg < 1:350623/71‑1 (MQ=255)
aCCGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATACCCACAGCGtt < 1:1227198/71‑1 (MQ=255)
ccGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATACCCACAGCGTTc < 1:5099/71‑1 (MQ=255)
ccGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGtt < 1:912952/70‑1 (MQ=255)
cGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATACCCACAGCGTTCt < 1:756989/71‑1 (MQ=255)
gAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgc > 1:3107272/1‑71 (MQ=255)
taCGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATACCCACAGCGTTCTgcg > 1:350509/2‑71 (MQ=255)
aCGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgc > 1:1502455/1‑71 (MQ=255)
aCGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgc < 1:3761026/71‑1 (MQ=255)
aCGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgc < 1:3699715/71‑1 (MQ=255)
aCGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcg > 1:2198179/1‑70 (MQ=255)
aCGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGGTCTgcgc < 1:1468783/71‑1 (MQ=255)
cGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgcg < 1:2391592/71‑1 (MQ=255)
gacgaagaTTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgcgc < 1:3693684/68‑1 (MQ=255)
gaagaaGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgcgc < 1:844117/71‑1 (MQ=255)
gaagaaGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATACCCACAGCGTTCTgcgcgc > 1:2518292/1‑71 (MQ=255)
gaagaTTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCgg < 1:1516309/71‑1 (MQ=255)
gaagaTTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCg > 1:432992/1‑70 (MQ=255)
aagaTTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCgg > 1:1533154/1‑70 (MQ=255)
aagaTTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCgg > 1:343039/1‑70 (MQ=255)
gaTTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAAc < 1:1058779/71‑1 (MQ=255)
ttGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCa < 1:1277295/71‑1 (MQ=255)
tGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAg > 1:2240384/1‑71 (MQ=255)
gTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCAc > 1:3017790/1‑69 (MQ=255)
gTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCAc > 1:2411339/1‑69 (MQ=255)
tACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGcc > 1:3569415/1‑57 (MQ=255)
tACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGcc > 1:2374236/1‑57 (MQ=255)
aCCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCa > 1:467581/1‑69 (MQ=255)
aCCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAg < 1:447574/70‑1 (MQ=255)
cGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTc < 1:2388672/46‑1 (MQ=255)
cGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTAc < 1:3538927/71‑1 (MQ=255)
cGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTAc > 1:291112/1‑71 (MQ=255)
cGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTAc > 1:1971779/1‑71 (MQ=255)
ttGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCAc < 1:1483380/63‑1 (MQ=255)
gCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGa > 1:2202386/1‑70 (MQ=255)
cGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGAt < 1:1876620/70‑1 (MQ=255)
ggTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTg < 1:1274505/42‑1 (MQ=255)
ggTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTg < 1:2328175/42‑1 (MQ=255)
tCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCt < 1:3047510/39‑1 (MQ=255)
tCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCt < 1:1327094/39‑1 (MQ=255)
tCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAAc > 1:328478/1‑70 (MQ=255)
tCACCATCCC‑CCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCAcc < 1:155341/57‑1 (MQ=255)
cACCATCCCGCCCATTACACCGGTACCTACTGCGTTc > 1:1549396/1‑37 (MQ=255)
cACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAg > 1:2778931/1‑59 (MQ=255)
cACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAAc > 1:2954398/1‑69 (MQ=255)
cACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAAc > 1:3761830/1‑69 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACt < 1:3247268/62‑1 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCa < 1:3657933/70‑1 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCa > 1:927027/1‑70 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAg > 1:1082288/1‑71 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAg > 1:18761/1‑71 (MQ=255)
cATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCTGAACCAGCACCAGTACTGATAACCAGCg < 1:3407678/71‑1 (MQ=255)
cATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCg > 1:1425086/1‑71 (MQ=255)
cATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCg > 1:3805356/1‑71 (MQ=255)
tCCCGCCCATTACACCGGTACCTACTGCGTTCTgcg > 1:2616681/1‑36 (MQ=255)
tCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCgg > 1:2289047/1‑70 (MQ=255)
cccGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCa > 1:1801455/1‑71 (MQ=255)
ccGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCg < 1:409043/67‑1 (MQ=255)
cccATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATaa > 1:1930723/1‑70 (MQ=255)
cccATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAAc > 1:2299343/1‑71 (MQ=255)
cccATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAAc > 1:3348179/1‑71 (MQ=255)
ccATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGAt < 1:1395343/55‑1 (MQ=255)
aTTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGcc > 1:1702184/1‑71 (MQ=255)
acacCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCAc > 1:3937843/1‑40 (MQ=255)
acacCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTa > 1:1573387/1‑45 (MQ=255)
acacCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGCCGa < 1:607219/70‑1 (MQ=255)
acCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGCCGAGGa < 1:3418941/71‑1 (MQ=255)
acCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGCCGAGGa < 1:771483/71‑1 (MQ=255)
ccGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGCCGAGGAt < 1:2760635/71‑1 (MQ=255)
ccGATACCCACAGCGTTCTGCGCGCCACTGCCGGCACCGTTACTGATAGCTAGCGGTAATACGCCGAg > 1:2664856/1‑68 (MQ=255)
ccGATACCCACAGCGTTCTGCGCGCCACTGCCGGCACCGTTACTGATAGCTAGCGGTAATACGCCGAg > 1:1643547/1‑68 (MQ=255)
gTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGCCGAGGATaa < 1:83574/70‑1 (MQ=255)
|
CACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCATAACGCCGAGGATAA > minE/309792‑309928
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
