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 |
1,015,112 |
A→G |
28.3% |
S319S (TCT→TCC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,112 | 0 | A | G | 28.3%
| 87.3
/ 40.8
| 60 | S319S (TCT→TCC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (28/15); new base G (7/10); total (35/25) |
| Fisher's exact test for biased strand distribution p-value = 1.45e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGT > minE/1015044‑1015182
|
ggATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagca > 1:2212769/1‑69 (MQ=255)
gATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagcag < 1:1247317/69‑1 (MQ=255)
gATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCagcagag < 1:1056671/71‑1 (MQ=255)
aTTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagcag < 1:1669408/68‑1 (MQ=255)
tATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCagcagagcag > 1:2973981/1‑71 (MQ=255)
tATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCagcagagc < 1:1669752/69‑1 (MQ=255)
gtGTTCCAGTTTTTCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCagcggagcag < 1:721844/69‑1 (MQ=255)
tGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAgg < 1:3892848/70‑1 (MQ=255)
gTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCagcagag > 1:392659/1‑65 (MQ=255)
ttCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagca < 1:2643762/61‑1 (MQ=255)
ttCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGgaga > 1:607970/1‑71 (MQ=255)
ttCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGgaga < 1:3764014/71‑1 (MQ=255)
cAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGc > 1:78816/1‑71 (MQ=255)
aGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTAGATATTACGGTCagcagag < 1:2524783/60‑1 (MQ=255)
tttttCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGccc < 1:793432/70‑1 (MQ=255)
tttCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagca > 1:2012158/1‑53 (MQ=255)
tttCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGga > 1:2102585/1‑61 (MQ=255)
tttCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGc > 1:2842329/1‑66 (MQ=255)
tttCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATa > 1:2452796/1‑71 (MQ=255)
tttCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCAtg > 1:3208825/1‑70 (MQ=255)
tttCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCAtg > 1:3156853/1‑70 (MQ=255)
tCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGga < 1:2499349/59‑1 (MQ=255)
tCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAgg > 1:2734118/1‑58 (MQ=255)
tCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAgg > 1:3667360/1‑58 (MQ=255)
ccAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATaccgaccg > 1:3135370/1‑71 (MQ=255)
cAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCgg > 1:1743945/1‑71 (MQ=255)
gATCCCCTGACTGTTTATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCggg < 1:3775032/70‑1 (MQ=255)
aTCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGccc > 1:2632534/1‑57 (MQ=255)
aTCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGccc > 1:2886572/1‑57 (MQ=255)
tCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCa > 1:2387389/1‑57 (MQ=255)
cccTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAgg < 1:241152/70‑1 (MQ=255)
cccTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGa > 1:2455545/1‑71 (MQ=255)
cccTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGa > 1:3128745/1‑71 (MQ=255)
ccTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGAt < 1:2456632/71‑1 (MQ=255)
gACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGgaga > 1:215618/1‑45 (MQ=255)
gACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGga < 1:2911233/43‑1 (MQ=255)
gACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATaccgac > 1:1989042/1‑58 (MQ=255)
cgcGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATgc > 1:1496659/3‑70 (MQ=255)
gcGGTTGATTTTAGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCAt > 1:1824979/2‑51 (MQ=255)
aCGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATgcgc < 1:3068290/71‑1 (MQ=255)
ttGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGa < 1:1931279/62‑1 (MQ=255)
ttGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGcc < 1:1287592/68‑1 (MQ=255)
ttGATCTTCGCTTTGATATTACGGTCAGCAGATCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGt > 1:353839/1‑70 (MQ=255)
tGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGa < 1:1551877/61‑1 (MQ=255)
tGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCa > 1:821960/1‑45 (MQ=255)
gATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATgccgaccg > 1:1015337/1‑53 (MQ=255)
gATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATa > 1:3037636/1‑46 (MQ=255)
ttCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTg < 1:3726174/70‑1 (MQ=255)
tCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTgg > 1:996414/1‑70 (MQ=255)
tCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTgg < 1:3781144/70‑1 (MQ=255)
cGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTg < 1:287031/68‑1 (MQ=255)
gCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCa > 1:587563/1‑37 (MQ=255)
gCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCa > 1:2516929/1‑37 (MQ=255)
gCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCa < 1:3384544/70‑1 (MQ=255)
cTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATa > 1:3394296/1‑38 (MQ=255)
tttGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACg < 1:1846925/63‑1 (MQ=255)
ttGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCgg < 1:2159129/44‑1 (MQ=255)
ttGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCgg > 1:759547/1‑44 (MQ=255)
tGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGc < 1:903527/69‑1 (MQ=255)
atatTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAAt < 1:3508987/71‑1 (MQ=255)
atTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCa > 1:683627/1‑71 (MQ=255)
atTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCa > 1:2950878/1‑71 (MQ=255)
ttACGGTCAGCAGAGCAGGAGACGCCCATAACGACCGGGCAGGATGCGCCGt > 1:3046932/1‑52 (MQ=255)
tACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCa > 1:3438422/1‑40 (MQ=255)
tACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCa < 1:246968/60‑1 (MQ=255)
tACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCAcg > 1:67741/1‑71 (MQ=255)
tACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCAc > 1:1604791/1‑70 (MQ=255)
cGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCAcgc < 1:2385778/70‑1 (MQ=255)
ggTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGAtaa < 1:2664253/66‑3 (MQ=255)
gTCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAAcgcg < 1:3702762/69‑1 (MQ=255)
tCAGCGGAGCAGGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTGGCAGACGGATAACGCGAAt < 1:458145/71‑1 (MQ=255)
agcggagcagGAGACGCCCATGCCGACCGGGCAGGATGCGCCGTGACGTg < 1:1444721/50‑1 (MQ=255)
agcagagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGt > 1:1140145/1‑71 (MQ=255)
gcagagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTc > 1:613430/1‑71 (MQ=255)
agagcagGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGt < 1:3294539/71‑1 (MQ=255)
|
GGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGCCGTGACGTGGCAGGCGAATCACGCGGATGTCGT > minE/1015044‑1015182
|
| 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
