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 |
309,843 |
C→T |
10.2% |
G1010G (GGG→GGA) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 309,843 | 0 | C | T | 10.2%
| 221.2
/ 12.3
| 78 | G1010G (GGG→GGA) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base C (36/34); new base T (4/4); total (40/38) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.66e-01 |
AAGCGGCGGCGAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCA > minE/309775‑309913
|
aaGCGGCGGCGAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATcc < 1:749825/70‑1 (MQ=255)
aGCGGCGGCGAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCg > 1:1225334/1‑71 (MQ=255)
aGCGGCGGCGAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCg > 1:3948018/1‑71 (MQ=255)
cggcggcgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGcc > 1:1194655/1‑71 (MQ=255)
caacggcggATCACCACAAAGAACACCGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATtcctcc > 1:2110854/4‑71 (MQ=255)
cggcggATCACCACAAAGAACACCGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATtcct > 1:1561204/1‑65 (MQ=255)
ggcgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCAtt < 1:1048865/71‑1 (MQ=255)
ggcgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCAt > 1:1330923/1‑70 (MQ=255)
gcgAACCACCACAAAGACTACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa < 1:2209098/71‑1 (MQ=255)
gcgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa < 1:3590208/71‑1 (MQ=255)
gcgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa < 1:3528139/71‑1 (MQ=255)
gcgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa < 1:2805596/71‑1 (MQ=255)
gcgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa < 1:1784113/71‑1 (MQ=255)
cgAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa > 1:2941047/1‑70 (MQ=255)
gAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTaca < 1:324198/71‑1 (MQ=255)
ccaccaCAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATccc > 1:2098850/1‑58 (MQ=255)
ccaccaCAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCg > 1:834336/1‑71 (MQ=255)
ccacAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa < 1:460194/63‑1 (MQ=255)
ccacAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTa < 1:2752933/63‑1 (MQ=255)
cacaAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTAc > 1:968756/1‑71 (MQ=255)
acaAAGAACACCGGTACGAAGAAGATTGCCAGCAACGTTGCAGAGACCATTCCTCCCATTACCCCGATAcc > 1:3566960/1‑71 (MQ=255)
caAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGccc < 1:3565250/56‑1 (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 < 1:3761026/71‑1 (MQ=255)
aCGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgc < 1:3699715/71‑1 (MQ=255)
aCGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTgcgc > 1:1502455/1‑71 (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 > 1:343039/1‑70 (MQ=255)
aagaTTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCgg > 1:1533154/1‑70 (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 > 1:291112/1‑71 (MQ=255)
cGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTAc > 1:1971779/1‑71 (MQ=255)
cGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTAc < 1:3538927/71‑1 (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 > 1:3761830/1‑69 (MQ=255)
cACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAAc > 1:2954398/1‑69 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACt < 1:3247268/62‑1 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCa > 1:927027/1‑70 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCa < 1:3657933/70‑1 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAg > 1:1082288/1‑71 (MQ=255)
aCCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAg > 1:18761/1‑71 (MQ=255)
cATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCTGAACCAGCACCAGTACTGATAACCAGCg < 1:3407678/71‑1 (MQ=255)
cATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCg > 1:3805356/1‑71 (MQ=255)
cATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCg > 1:1425086/1‑71 (MQ=255)
tCCCGCCCATTACACCGGTACCTACTGCGTTCTgcg > 1:2616681/1‑36 (MQ=255)
tCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCgg > 1:2289047/1‑70 (MQ=255)
cccGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCa > 1:1801455/1‑71 (MQ=255)
|
AAGCGGCGGCGAACCACCACAAAGAATACCGGAACGAAGAAGATTGCCAGTACCGTTGCGGTCACCATCCCGCCCATTACACCGGTACCTACTGCGTTCTGCGCGCCGGAACCAGCACCAGTACTGATAACCAGCGGCA > minE/309775‑309913
|
| 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
