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 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
965,646 |
C→T |
55.8% |
G83D (GGC→GAC) |
ydeM ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 965,646 | 0 | C | T | 55.8%
| 37.5
/ 136.7
| 104 | G83D (GGC→GAC) | ydeM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (22/24); new base T (30/28); total (52/52) |
| Fisher's exact test for biased strand distribution p-value = 8.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 105 total aligned reads displayed.
AGGCACACCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGTTCACCGCC > minE/965581‑965716
|
aGGCACACCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCa < 1:2294799/71‑1 (MQ=255)
ggCACACCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCAt < 1:918566/71‑1 (MQ=255)
gCACACCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCa > 1:1379773/1‑69 (MQ=255)
cacaCCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAg < 1:2230486/71‑1 (MQ=255)
cacaCCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAg > 1:1160082/1‑71 (MQ=255)
cacaCCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAg > 1:3233450/1‑71 (MQ=255)
cacaCCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAg > 1:595288/1‑71 (MQ=255)
cacCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCg > 1:1412253/1‑71 (MQ=255)
acCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgt > 1:836589/1‑71 (MQ=255)
acCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgt > 1:2126899/1‑71 (MQ=255)
acCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgt > 1:861831/1‑71 (MQ=255)
acCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgt > 1:1837632/1‑71 (MQ=255)
acCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGc > 1:282200/1‑64 (MQ=255)
acCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGc > 1:3041615/1‑64 (MQ=255)
acCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCgt > 1:1471944/1‑71 (MQ=255)
cattcattATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgttg < 1:2324910/71‑1 (MQ=255)
cattcattATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgttg > 1:3141445/1‑71 (MQ=255)
ttattCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGa > 1:889569/1‑69 (MQ=255)
ttattCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGa < 1:322535/69‑1 (MQ=255)
ttattCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATa < 1:856732/71‑1 (MQ=255)
attCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATa > 1:1644636/1‑69 (MQ=255)
ttCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGt < 1:718395/70‑1 (MQ=255)
ttCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGt < 1:768092/70‑1 (MQ=255)
tAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgt < 1:3664399/55‑1 (MQ=255)
tAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCgt < 1:1233288/55‑1 (MQ=255)
tAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATaa > 1:3231215/1‑71 (MQ=255)
tAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATaa > 1:3152228/1‑71 (MQ=255)
tAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATaa > 1:3405538/1‑71 (MQ=255)
tAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATaa > 1:427576/1‑71 (MQ=255)
aaaTGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCa > 1:3140700/1‑47 (MQ=255)
aaaTGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCa > 1:2048720/1‑47 (MQ=255)
aaaTGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCa > 1:1425692/1‑47 (MQ=255)
aaaTGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACt < 1:2656712/71‑1 (MQ=255)
aTGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACttt < 1:2974492/71‑1 (MQ=255)
tGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTa < 1:2928653/71‑1 (MQ=255)
tGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTa < 1:1576012/71‑1 (MQ=255)
ccATTCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTAc < 1:770662/70‑1 (MQ=255)
ccATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTAc < 1:3418062/70‑1 (MQ=255)
ttCGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGAt < 1:889246/52‑1 (MQ=255)
ttCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGa > 1:2827984/1‑70 (MQ=255)
cGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATa > 1:2155006/1‑51 (MQ=255)
cGTTTGTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAg > 1:3205939/1‑52 (MQ=255)
cGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGaaa > 1:3151048/1‑70 (MQ=255)
ttGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAAt > 1:847009/1‑71 (MQ=255)
gTAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATc < 1:1377980/70‑1 (MQ=255)
tAATGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGaaaaaa < 1:3616342/67‑1 (MQ=255)
aTGCATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAgg > 1:1058291/1‑71 (MQ=255)
tGCATTAAAAATACGTTTTTGGTCTGCATAGCgttgtt < 1:3538283/38‑1 (MQ=255)
tGCATTAAAAATACGTTTTTGGTCTGCATAGCgttgtt < 1:3418136/38‑1 (MQ=255)
tGCATTAAAAATACGTTTTTGGTCTGCATAGCgttgtt < 1:146651/38‑1 (MQ=255)
tGCATTAAAAATACGTTTTTGGTCTGCATAGCgttgtt < 1:3267685/38‑1 (MQ=255)
gCATTAAAAATACGTTTTTGGTCTGCATAGCgttgtt < 1:1569631/37‑1 (MQ=255)
cATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAg > 1:969982/1‑67 (MQ=255)
cATTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAg > 1:3591048/1‑67 (MQ=255)
cATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATa > 1:63131/1‑40 (MQ=255)
cATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATa > 1:2431729/1‑40 (MQ=255)
cATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgc > 1:1740555/1‑69 (MQ=255)
aTTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAAt < 1:1504455/62‑1 (MQ=255)
aTTAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccag > 1:41577/1‑71 (MQ=255)
aTTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTAc > 1:3315032/1‑53 (MQ=255)
aTTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTAc > 1:2289498/1‑53 (MQ=255)
aTTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTAc > 1:1775348/1‑53 (MQ=255)
ttAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATcc < 1:1235029/63‑1 (MQ=255)
ttAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATcc < 1:257423/63‑1 (MQ=255)
ttAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATcc < 1:1932496/63‑1 (MQ=255)
ttAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccagc < 1:1289711/71‑1 (MQ=255)
ttAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgcca > 1:776777/1‑69 (MQ=255)
ttAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAg < 1:1727315/65‑1 (MQ=255)
tAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACttt > 1:2846876/1‑49 (MQ=255)
tAAAAATACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccagc > 1:1808436/1‑70 (MQ=255)
aaaaaTATGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccagc > 1:54094/1‑69 (MQ=255)
aaaaaTACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAAt > 1:1675164/1‑59 (MQ=255)
aaaaaTACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccagcc < 1:2363473/70‑1 (MQ=255)
aaaaaTACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAgg > 1:3568679/1‑64 (MQ=255)
aaaaaTACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAgg > 1:2027806/1‑64 (MQ=255)
aaaaaTACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccagcc < 1:3627616/70‑1 (MQ=255)
aaaaaTACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccagc > 1:551480/1‑69 (MQ=255)
aaaaaTACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGgccagc > 1:2904225/1‑69 (MQ=255)
aaaaTACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGccagccag < 1:1625281/71‑1 (MQ=255)
aaTACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCaga < 1:2294344/70‑1 (MQ=255)
aTACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGt > 1:3013730/1‑71 (MQ=255)
tACGTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTg < 1:3487346/71‑1 (MQ=255)
cGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTggg < 1:3617115/71‑1 (MQ=255)
cGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTggg < 1:1403773/71‑1 (MQ=255)
cGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTggg < 1:1408330/71‑1 (MQ=255)
gTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGt < 1:3378761/71‑1 (MQ=255)
gTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGt < 1:2385286/71‑1 (MQ=255)
gTTTTTGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGt > 1:2169794/1‑71 (MQ=255)
gTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACt < 1:709262/38‑1 (MQ=255)
gTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACt < 1:698895/38‑1 (MQ=255)
gTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACt < 1:3613678/38‑1 (MQ=255)
gTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACt < 1:2266307/38‑1 (MQ=255)
gTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACt < 1:1287735/38‑1 (MQ=255)
gTTTTTGGCCTGCATAGCGTTCTTGATAGTGAATAACt < 1:2466087/38‑1 (MQ=255)
tttttGGCGTGCATAGCGTTGTTGATAGTGATTAACt < 1:2574610/37‑1 (MQ=38)
tttttGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGaaaa < 1:335160/47‑1 (MQ=255)
tttGGTCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGTTc > 1:3400001/1‑70 (MQ=255)
ttGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGTTCa < 1:3548715/70‑1 (MQ=255)
ggCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGTTCAcc < 1:1760396/70‑1 (MQ=255)
ccTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGTTCACCGcc < 1:2536177/71‑1 (MQ=255)
|
AGGCACACCATTCATTATTCAATAAAATGCCATTCGTTTGTAATGCATTAAAAATACGTTTTTGGCCTGCATAGCGTTGTTGATAGTGAATAACTTTACGGAAAAAATCCAGGCCAGCCAGAGTGGGTTCACCGCC > minE/965581‑965716
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
