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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,511,807 |
G→A |
53.7% |
E359K (GAG→AAG) |
pta → |
phosphate acetyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,511,807 | 0 | G | A | 53.7%
| 11.2
/ 117.4
| 80 | E359K (GAG→AAG) | pta | phosphate acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (17/20); new base A (21/22); total (38/42) |
| Fisher's exact test for biased strand distribution p-value = 8.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.24e-01 |
CTGGCAGACCTCTCTGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGCCAC > minE/1511740‑1511871
|
cTGGCAGACCTCTCTGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCgaga < 1:3652376/71‑1 (MQ=255)
ccTCTCTGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAg > 1:4034694/1‑71 (MQ=255)
ctctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAgg < 1:2172342/71‑1 (MQ=255)
ctctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAgg < 1:3367704/71‑1 (MQ=255)
ctctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAgg < 1:3803504/71‑1 (MQ=255)
ctctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAg > 1:1376958/1‑70 (MQ=255)
ctctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAg > 1:820249/1‑70 (MQ=255)
tctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTGTCGAGAAAGTTCAgg < 1:19612/70‑1 (MQ=255)
ctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGaaa > 1:622430/1‑62 (MQ=255)
ctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGaaa > 1:3388283/1‑62 (MQ=255)
ctctGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGaaa > 1:2890418/1‑62 (MQ=255)
cTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGc > 1:1896770/1‑71 (MQ=255)
gCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTg > 1:2233452/1‑68 (MQ=255)
cAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCt < 1:1373885/69‑1 (MQ=255)
cAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCt < 1:2703576/69‑1 (MQ=255)
cAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTaa > 1:833506/1‑71 (MQ=255)
cAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTaa > 1:2844142/1‑71 (MQ=255)
agagCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAAc > 1:2916865/1‑71 (MQ=255)
agagCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAAc > 1:903960/1‑71 (MQ=255)
agagCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAAc > 1:1132196/1‑71 (MQ=255)
tCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTaa > 1:1411270/1‑64 (MQ=255)
tCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTaa > 1:207429/1‑64 (MQ=255)
cAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATc < 1:1427741/70‑1 (MQ=255)
tGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTaa > 1:752295/1‑58 (MQ=255)
tGGAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTaa > 1:2138068/1‑58 (MQ=255)
gAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCt < 1:2231928/69‑1 (MQ=255)
gAAGTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCt < 1:1088839/69‑1 (MQ=255)
gTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCt < 1:968988/51‑1 (MQ=255)
gTTCCGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCt < 1:2390189/51‑1 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTaa > 1:2194994/1‑51 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTaa > 1:1223039/1‑51 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTaa > 1:603913/1‑51 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTaa > 1:423290/1‑51 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTaa > 1:1404171/1‑51 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTaa > 1:1560706/1‑51 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTaa > 1:2955545/1‑51 (MQ=255)
tCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGa > 1:1947914/1‑71 (MQ=255)
tCCGGGTGACGATCACGAACGGATCGAGAAAGTTAAGGAATACGTTGCTAACTACATCAACGCTGACTGGa > 1:3468100/1‑71 (MQ=255)
ccGGTTGACGATCACGAACGTATCGTGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGAt > 1:4068236/1‑71 (MQ=255)
ccGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGAt > 1:3168071/1‑71 (MQ=255)
ccGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGAt > 1:1041328/1‑71 (MQ=255)
ccGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGAt > 1:2002819/1‑71 (MQ=255)
ccGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGAt > 1:4167643/1‑71 (MQ=255)
ccGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGAt > 1:677989/1‑71 (MQ=255)
cGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATc < 1:2273452/56‑1 (MQ=255)
cGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATc < 1:1361593/56‑1 (MQ=255)
cGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATc < 1:1192245/56‑1 (MQ=255)
cGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATc < 1:3848427/56‑1 (MQ=255)
cGGTTGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATc < 1:2810687/56‑1 (MQ=255)
ggTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCg < 1:302794/71‑1 (MQ=255)
gTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACAt < 1:2669624/53‑1 (MQ=255)
gTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACAt < 1:3857112/53‑1 (MQ=255)
gTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACAt < 1:1649213/53‑1 (MQ=255)
gTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACAt < 1:3332949/53‑1 (MQ=255)
gTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACAt < 1:3294712/53‑1 (MQ=255)
gTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACAt < 1:1905945/53‑1 (MQ=255)
ttGACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATc < 1:2912716/53‑1 (MQ=255)
gACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAAt < 1:2966921/70‑1 (MQ=255)
gACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAAt < 1:1772494/70‑1 (MQ=255)
gACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAAt < 1:4077625/70‑1 (MQ=255)
gACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTa > 1:1645181/1‑47 (MQ=255)
gACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTa > 1:3046268/1‑47 (MQ=255)
gACGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTa > 1:2617522/1‑47 (MQ=255)
cGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTa < 1:339319/41‑1 (MQ=255)
cGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTa < 1:3596178/41‑1 (MQ=255)
cGATCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTa < 1:866404/41‑1 (MQ=255)
aTCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCt < 1:2208355/38‑1 (MQ=255)
aTCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCt < 1:3532504/38‑1 (MQ=255)
aTCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTgg < 1:1122084/59‑1 (MQ=255)
tCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCt < 1:3091683/37‑1 (MQ=255)
tCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGa < 1:3445546/71‑1 (MQ=255)
tCACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGa < 1:3137740/71‑1 (MQ=255)
cACGAACGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGAc > 1:615479/1‑71 (MQ=255)
gAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGc > 1:412603/1‑71 (MQ=255)
gAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGc > 1:2398523/1‑71 (MQ=255)
cGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGGCTGCCAc < 1:2178859/71‑1 (MQ=255)
cGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGCCAc < 1:4159563/71‑1 (MQ=255)
cGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGCCAc < 1:2162856/71‑1 (MQ=255)
cGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGCCAc < 1:607948/71‑1 (MQ=255)
cGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGCCAc < 1:1760231/71‑1 (MQ=255)
cGTATCAAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGCCAc < 1:284307/71‑1 (MQ=255)
gagaAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGa < 1:1583382/50‑1 (MQ=255)
gagaAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGa < 1:222289/50‑1 (MQ=255)
|
CTGGCAGACCTCTCTGAGCCTGCAGAGCTTCAACCTGGAAGTTCCGGTTGACGATCACGAACGTATCGAGAAAGTTCAGGAATACGTTGCTAACTACATCAACGCTGACTGGATCGAATCTCTGACTGCCAC > minE/1511740‑1511871
|
| 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
