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 |
|
A5 F28 I3 R1
|
375 |
42.1 |
2927644 |
71.4% |
2090337 |
57.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,785,536 |
C→A |
A320A (GCG→GCT) |
emrD ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,785,536 | 0 | C | A | 100.0%
| 177.9
/ NA
| 54 | A320A (GCG→GCT) | emrD | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (0/54); total (0/54) |
CAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTCGCCAGCGGAAACAGCATCCCGGCACCGA > W3110S.gb/3785503‑3785564
|
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2534508/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1884061/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1020296/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1945833/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2254184/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2267443/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2271857/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2284341/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:230355/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2351913/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2371144/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2374356/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2433088/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1900237/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2576555/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2593597/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2755685/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2783014/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2913259/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:315108/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:401178/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:671763/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:714461/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:789413/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:839585/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1698914/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1397267/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1500898/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1521643/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1366765/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1574463/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1589962/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1597787/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1270428/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1649077/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1213817/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1698958/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1700134/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1707003/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:170821/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1714339/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1773607/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1791120/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1867358/62‑1 (MQ=255)
cAGGAAGGGGAACGGCTCCATCGCGCCGCTGGAAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1822164/62‑1 (MQ=255)
aGGAAGGGGAACGGCTCCATCGCGCCTCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:653416/61‑1 (MQ=255)
aGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2591139/61‑1 (MQ=255)
aGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1645544/61‑1 (MQ=255)
aGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:2346120/61‑1 (MQ=255)
aGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1162271/61‑1 (MQ=255)
aGGAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1079027/61‑1 (MQ=255)
gAAGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1384718/59‑1 (MQ=255)
aGGGGAACGGCTCCATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:280751/57‑1 (MQ=255)
ccATCGCGCCGCTGGTAGCCAGTGGAAACAGCATCCCGGCACCGa < 1:1462790/45‑1 (MQ=38)
|
CAGGAAGGGGAACGGCTCCATCGCGCCGCTGGTCGCCAGCGGAAACAGCATCCCGGCACCGA > W3110S.gb/3785503‑3785564
|
| 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
