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 |
|
A4 F28 I3 R2
|
52 |
92.4 |
4932871 |
87.1% |
4296530 |
63.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,421,748 |
T→C |
K196K (AAA→AAG) |
wzxE ← |
O‑antigen translocase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,421,748 | 0 | T | C | 100.0%
| 287.0
/ NA
| 77 | K196K (AAA→AAG) | wzxE | O‑antigen translocase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (15/62); total (15/62) |
ACTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGTTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCC > minE/2421687‑2421814
|
aCTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAAc < 1:4926845/71‑1 (MQ=255)
aCTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAAc < 1:2475376/71‑1 (MQ=255)
aCTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAAc < 1:4884328/71‑1 (MQ=255)
aCTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAAc < 1:3946204/71‑1 (MQ=255)
aCTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAAc < 1:1330715/71‑1 (MQ=255)
aCTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAAc < 1:657348/71‑1 (MQ=255)
aCTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAAc < 1:850977/71‑1 (MQ=255)
ctgccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACa < 1:3440594/71‑1 (MQ=255)
ctgccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACa < 1:2846205/71‑1 (MQ=255)
ctgccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACa < 1:4834676/71‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTTGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:4715689/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTTGGTTTCAGATAGATTAACGGGATGACACCACGCTTTATCAACat < 1:478683/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:3734888/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:4297567/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:2522902/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:2874155/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:4569168/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:2482738/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:4813321/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:1386971/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:1418403/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:2231077/69‑1 (MQ=255)
ccctgccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACat < 1:2071398/69‑1 (MQ=255)
gccAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATggc > 1:2858107/1‑71 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:2482772/71‑1 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:3536560/71‑1 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:3166401/71‑1 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:42786/71‑1 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:3049255/71‑1 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:2919831/71‑1 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:2630435/71‑1 (MQ=255)
ccGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:4854476/71‑1 (MQ=255)
cGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAgg < 1:4256029/70‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:56255/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:4304359/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:4523568/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:4209426/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:3995910/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:638857/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:3522876/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:3646432/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:2319686/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:2879182/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:3069924/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:2718200/50‑1 (MQ=255)
gTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:2287943/50‑1 (MQ=255)
ttATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:4694320/49‑1 (MQ=255)
aTCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAAtt < 1:3767860/70‑1 (MQ=255)
aTCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAAtt < 1:2394812/70‑1 (MQ=255)
aTCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAAtt < 1:3071542/70‑1 (MQ=255)
aTCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAAtt < 1:1226503/70‑1 (MQ=255)
cccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:2055259/54‑1 (MQ=255)
cccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:3836817/54‑1 (MQ=255)
cccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:3360057/54‑1 (MQ=255)
cccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:1673788/54‑1 (MQ=255)
cccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:4469053/54‑1 (MQ=255)
cccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:1210489/54‑1 (MQ=255)
ccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:4316638/53‑1 (MQ=255)
ccAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACatga < 1:3660954/53‑1 (MQ=255)
cAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGa < 1:3564318/43‑1 (MQ=255)
cAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAATTaccac > 1:1115553/1‑71 (MQ=255)
tCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCggg > 1:4844592/1‑70 (MQ=255)
tCAGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCggg > 1:2508280/1‑70 (MQ=255)
aGATAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAATTAGCACCAGCGCGGGAAt > 1:4266284/1‑71 (MQ=255)
aGAAAGCTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAATTACCACCAg > 1:2811370/1‑62 (MQ=255)
cTTAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAgcgc < 1:3493061/71‑1 (MQ=255)
tAACGGGATGACACCACGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAgcgc > 1:3927818/1‑69 (MQ=255)
gATGACACGACGCTTGATCAACATGATGGCGGCAgg < 1:15293/36‑1 (MQ=37)
ccacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGa < 1:1916060/48‑1 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGcc > 1:4652803/1‑71 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGcc > 1:2529263/1‑71 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGcc > 1:3690425/1‑71 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGcc > 1:3671867/1‑71 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGcc > 1:3321878/1‑71 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGc > 1:3552478/1‑70 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCAGGAATCAGCGCCAGACCCAGCAACGcc > 1:2317840/1‑71 (MQ=255)
cacGCTTGATCAACATGATGGCGGCAGGAATTACAACACGCGCGGGAATCAg > 1:3976859/1‑52 (MQ=255)
|
ACTGCCCTGCCAGACCGTTATCCCAGCTGGGTTTCAGATAGCTTAACGGGATGACACCACGTTTGATCAACATGATGGCGGCAGGAATTACCACCAGCGCGGGAATCAGCGCCAGACCCAGCAACGCC > minE/2421687‑2421814
|
| 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
