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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,902,330 |
A→T |
36.4% |
intergenic (+300/+1073) |
ygcE → / ← ygcF |
predicted kinase/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,902,330 | 0 | A | T | 36.4%
| 51.1
/ 57.2
| 55 | intergenic (+300/+1073) | ygcE/ygcF | predicted kinase/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (18/17); new base T (10/10); total (28/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
AATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATT > W3110S.gb/2902267‑2902390
|
aaTTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCgg > 1:1530304/1‑71 (MQ=255)
ttttCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGt > 1:1352776/1‑70 (MQ=255)
ttttCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGt > 1:3088489/1‑70 (MQ=255)
ttCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCgg > 1:4432188/1‑67 (MQ=255)
ttCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTAt > 1:1402591/1‑71 (MQ=255)
cACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATaga > 1:1960486/1‑60 (MQ=255)
cTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGt < 1:2669737/64‑1 (MQ=255)
cTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTaa < 1:3578172/71‑1 (MQ=255)
cTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTaa < 1:2859153/71‑1 (MQ=255)
aaaGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAAc > 1:1786813/1‑71 (MQ=255)
aaaGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTaa < 1:3727513/68‑1 (MQ=255)
aaaGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAAc > 1:895482/1‑71 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGtata > 1:501137/1‑47 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGtata > 1:698911/1‑47 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGtata < 1:269141/47‑1 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTc < 1:2234410/70‑1 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCa < 1:21216/71‑1 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCa < 1:1302075/71‑1 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCa < 1:2762660/71‑1 (MQ=255)
tGAACTGGATATCTTTATTCATAAGAACTATTCATCAACACCGtata < 1:601445/47‑1 (MQ=255)
cTGGATATCTTTATTAATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTaa < 1:2146992/58‑1 (MQ=255)
gATATCTTTATTCATAAGAACTATTCATCAACAGCGTATaga > 1:3344365/1‑42 (MQ=255)
gATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGc < 1:1482786/69‑1 (MQ=255)
gATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCt > 1:2886008/1‑71 (MQ=255)
tatCTTTATTCATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTaa < 1:1387081/53‑1 (MQ=255)
atCTTTATTCATAAGAACTATTCATCAACAGCGTATtga > 1:3718111/1‑39 (MQ=255)
tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCaa < 1:93296/70‑1 (MQ=255)
tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCaa < 1:954002/70‑1 (MQ=255)
tCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCaa > 1:32129/1‑70 (MQ=255)
cTTTATTCATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCaaaa > 1:4518697/1‑71 (MQ=255)
cTTTATTCATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCaaaa > 1:2532206/1‑71 (MQ=255)
cTTTATTCATAAGAACTATTCATCAACAGCGTATTGAGGAGGTTATGTAAAACCACTCATTAGCCTCaaaa > 1:3032692/1‑71 (MQ=255)
cTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCaaaa > 1:2764734/1‑71 (MQ=255)
ttATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTa > 1:3523175/1‑43 (MQ=255)
tATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCAt > 1:638494/1‑57 (MQ=255)
tATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCaa < 1:3146199/66‑1 (MQ=255)
ttCATAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCAtt > 1:1575210/1‑56 (MQ=255)
cATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTa > 1:1253695/1‑42 (MQ=255)
aTAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACa < 1:4314271/71‑1 (MQ=255)
tAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTaaa > 1:1732440/1‑42 (MQ=255)
tAAGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACa < 1:2991657/70‑1 (MQ=255)
aGAACTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAAc < 1:2508392/71‑1 (MQ=255)
aGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACaaa < 1:631564/70‑1 (MQ=255)
aCTATTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTc < 1:2875807/71‑1 (MQ=255)
aTTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACaaa > 1:3480796/1‑64 (MQ=255)
aTTCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTc > 1:4328188/1‑68 (MQ=255)
ttCATCAACAGCGTATTGAGGCGGTTATGTAAAACCACTCa < 1:4219699/41‑1 (MQ=255)
ttCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTc > 1:155281/1‑67 (MQ=255)
tcatcaACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACaaa < 1:1622163/56‑1 (MQ=255)
tcatcaACAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTcc > 1:4302472/1‑67 (MQ=255)
tcatcaACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAt > 1:2085051/1‑71 (MQ=255)
catcaACAGCGTATATAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAtt > 1:3998782/1‑71 (MQ=255)
atcaACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGAttt < 1:1174674/71‑1 (MQ=255)
tcaACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCaa < 1:1952979/47‑1 (MQ=255)
tcaACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGa < 1:3057458/55‑1 (MQ=255)
tcaACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACaa < 1:537629/58‑1 (MQ=255)
aaCAGCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATttat > 1:3857647/1‑70 (MQ=255)
aaCAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATttatt < 1:4232928/71‑1 (MQ=255)
aaCAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATttat > 1:4534203/1‑70 (MQ=255)
aaCAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCAAGAt > 1:3852384/1‑66 (MQ=255)
aaCAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCAAGATttat > 1:4396570/1‑70 (MQ=255)
gCGTATTGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATttat < 1:1090097/66‑1 (MQ=255)
|
AATTTTCACTTAAAGTATGAACTGGATATCTTTATTCATAAGAACTATTCATCAACAGCGTATAGAGGCGGTTATGTAAAACCACTCATTAGCCTCAAAACAAAGACAAACTTCCAGATTTATT > W3110S.gb/2902267‑2902390
|
| 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
