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 |
1,015,079 |
A→G |
15.5% |
R330R (CGT→CGC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,079 | 0 | A | G | 15.5%
| 167.8
/ 21.4
| 71 | R330R (CGT→CGC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (34/26); new base G (5/6); total (39/32) |
| Fisher's exact test for biased strand distribution p-value = 5.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.53e-01 |
CCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGC > minE/1015009‑1015149
|
ccGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGa < 1:1215642/71‑1 (MQ=255)
gCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACg > 1:1491615/1‑71 (MQ=255)
gCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACg > 1:2299975/1‑71 (MQ=255)
gCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACg > 1:2947824/1‑71 (MQ=255)
ttGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGtt > 1:1209672/1‑71 (MQ=255)
ttGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGtt > 1:3504198/1‑71 (MQ=255)
gcAGTTCTTGTGGAATGTACTGGCCTGGGTTGTGTTCCAGTTTTTCGATCCAGATACCTTCGCGGGTGAtt < 1:3451835/71‑2 (MQ=255)
gcAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGa < 1:292661/69‑1 (MQ=255)
aGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCtt > 1:1936973/1‑71 (MQ=255)
gCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTc > 1:2642122/1‑71 (MQ=255)
ttCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGc < 1:1835960/69‑1 (MQ=255)
ccGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCttt > 1:1426032/1‑70 (MQ=255)
ccGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCttt > 1:2298172/1‑70 (MQ=255)
ccGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCt < 1:2611960/68‑1 (MQ=255)
tatatTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGt < 1:3249398/51‑1 (MQ=255)
atatTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTAc > 1:614520/1‑71 (MQ=255)
tttGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTg < 1:498842/49‑1 (MQ=255)
tGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTc < 1:3580333/70‑1 (MQ=255)
gCCTGGGTTGTGTTCCAGTTTTTCGATCCAGATACCTTCGCGGTTGATTTTCGCttt < 1:3234085/57‑1 (MQ=255)
ccTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcag < 1:1789955/70‑1 (MQ=255)
tGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGa < 1:2291907/56‑1 (MQ=255)
tGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGa < 1:2661297/56‑1 (MQ=255)
tGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcag > 1:834441/1‑68 (MQ=255)
tGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcag > 1:2800083/1‑68 (MQ=255)
tGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTc < 1:155690/66‑1 (MQ=255)
tGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTc < 1:2398348/66‑1 (MQ=255)
ggATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagca > 1:2212769/1‑69 (MQ=255)
gATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGata > 1:266991/1‑56 (MQ=255)
gATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagcag < 1:1247317/69‑1 (MQ=255)
gATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCagcagag < 1:1056671/71‑1 (MQ=255)
aTTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagcag < 1:1669408/68‑1 (MQ=255)
tATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTa > 1:1125117/1‑56 (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)
gTTCCAGTTTTTCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTca > 1:1812360/1‑59 (MQ=255)
ttCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTcagca < 1:2643762/61‑1 (MQ=255)
ttCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGgaga > 1:607970/1‑71 (MQ=255)
ttCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGgaga < 1:3764014/71‑1 (MQ=255)
tCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCt < 1:2805696/42‑1 (MQ=255)
cAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGc > 1:78816/1‑71 (MQ=255)
cAGTTTTTCGATCCAGATACCTTCGCGGTTGATTTTCGCttt < 1:243883/42‑1 (MQ=19)
aGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTAGATATTACGGTCagcagag < 1:2524783/60‑1 (MQ=255)
tttttCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGt < 1:1312897/50‑1 (MQ=255)
tttttCGATCCAGATACCTTCGCGGTTGATTTTCg < 1:115257/35‑1 (MQ=12)
tttttCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGccc < 1:793432/70‑1 (MQ=255)
ttttCGATCCAGATCCCCTGACGGTTGATCTTCGc > 1:1709663/1‑35 (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 > 1:3156853/1‑70 (MQ=255)
tttCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAGGAGACGCCCAtg > 1:3208825/1‑70 (MQ=255)
tCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGata > 1:961996/1‑39 (MQ=255)
tCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGga < 1:2499349/59‑1 (MQ=255)
tCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAgg > 1:3667360/1‑58 (MQ=255)
tCGATCCAGATACCTTCGCGGTTGATTTTCGCTTTAATGTTACGGTCAGCGGAGCAgg > 1:2734118/1‑58 (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)
aCGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATgcgc < 1:3068290/71‑1 (MQ=255)
|
CCGCTTTGCGCAGCTCTTCCGGGATATATTTGCCTGGATTATGTTCCAGTTTTTCGATCCAGATCCCCTGACGGTTGATCTTCGCTTTGATATTACGGTCAGCAGAGCAGGAGACGCCCATACCGACCGGGCAGGATGCGC > minE/1015009‑1015149
|
| 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
