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 I1 R2
|
164 |
48.3 |
4710601 |
85.3% |
4018142 |
55.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,980,009 |
T→C |
intergenic (‑6/+19) |
mdtF ← / ← mdtE |
multidrug transporter, RpoS‑dependent/multidrug resistance efflux transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,980,009 | 0 | T | C | 100.0%
| 131.3
/ NA
| 36 | intergenic (‑6/+19) | mdtF/mdtE | multidrug transporter, RpoS‑dependent/multidrug resistance efflux transporter |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/27); total (9/27) |
AATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGTCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCCTGGCTG > W3110S.gb/3979950‑3980064
|
aataatGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGccc < 1:1384791/62‑1 (MQ=255)
aataatGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGccc < 1:434619/62‑1 (MQ=255)
cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTaa > 1:2682119/1‑60 (MQ=255)
cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTaa > 1:1788751/1‑60 (MQ=255)
cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAg > 1:4632207/1‑61 (MQ=255)
cAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAg > 1:1548942/1‑61 (MQ=255)
cccAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCa > 1:4593851/1‑61 (MQ=255)
cAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACg < 1:4586667/62‑1 (MQ=255)
cAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACg < 1:1916255/62‑1 (MQ=255)
aGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACg < 1:2584616/61‑1 (MQ=255)
cAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTa > 1:70089/1‑61 (MQ=255)
aaaaaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTAtt > 1:1070978/1‑62 (MQ=255)
aaaaaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTAtt > 1:1258366/1‑62 (MQ=255)
aaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGtt < 1:1473493/62‑1 (MQ=255)
aaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGtt < 1:3455674/62‑1 (MQ=255)
aaCCGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGtt < 1:3316245/62‑1 (MQ=255)
cGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCg < 1:1026786/62‑1 (MQ=255)
cGGGCGATCAATAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCg < 1:3344770/62‑1 (MQ=255)
tAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCt < 1:1795014/61‑1 (MQ=255)
tAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCt < 1:528829/61‑1 (MQ=255)
tAAAATAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCt < 1:2782918/61‑1 (MQ=255)
aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt < 1:2102002/62‑1 (MQ=255)
aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt < 1:505481/62‑1 (MQ=255)
aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt < 1:3905801/62‑1 (MQ=255)
aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt < 1:3587058/62‑1 (MQ=255)
aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt < 1:304520/62‑1 (MQ=255)
aTAGTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGt < 1:2727870/62‑1 (MQ=255)
gTTAGCCATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGtttt > 1:3763954/1‑62 (MQ=255)
cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc < 1:305033/62‑1 (MQ=255)
cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc < 1:1462837/62‑1 (MQ=255)
cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc < 1:1433343/62‑1 (MQ=255)
cATGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc < 1:2583531/62‑1 (MQ=255)
aTGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc < 1:3067194/61‑1 (MQ=255)
aTGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggc < 1:2135489/61‑1 (MQ=255)
tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg < 1:258659/62‑1 (MQ=255)
tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg < 1:1068549/62‑1 (MQ=255)
tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg < 1:2578551/62‑1 (MQ=255)
tGAAAGCCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCctggctg < 1:2154066/62‑1 (MQ=255)
|
AATAATGGCAAGTACCCAGGCAAAAACCGGGCGATCAATAAAATAGTTAGCCATGAAAGTCCCCTTAAGCCTGCAACGTTATTGTTTCGATTCGGTGCTGGCGTTTTCCTGGCTG > W3110S.gb/3979950‑3980064
|
| 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
