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 F28 I1 R2
|
328 |
63.0 |
4687567 |
98.0% |
4593815 |
65.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,464,504 |
C→G |
E34D (GAG→GAC) |
yfcX ← |
fused enoyl‑CoA hydratase, 3‑hydroxybutyryl‑CoA epimerase, dodecenoyl‑CoA D‑isomerase, and 3‑hydroxyacyl‑CoA dehydrogenase, subunit of anaerobic fatty acid oxidation complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,464,504 | 0 | C | G | 98.0%
| 160.0
/ ‑4.2
| 49 | E34D (GAG→GAC) | yfcX | fused enoyl‑CoA hydratase, 3‑hydroxybutyryl‑CoA epimerase, dodecenoyl‑CoA D‑isomerase, and 3‑hydroxyacyl‑CoA dehydrogenase, subunit of anaerobic fatty acid oxidation complex |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base G (25/23); total (26/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
AACACCACGCCTCGCAACTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAACTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGATAACGGCAATGTTGTCCA > W3110S.gb/2464436‑2464568
|
aaCACCACGCCTCGCAACTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTc > 1:3948926/1‑71 (MQ=255)
acacCACGCCTCGCAACTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTcc < 1:4159227/71‑1 (MQ=255)
caccacGCCTCGCAACTCTTTGTTTTCATGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCg > 1:3944331/1‑71 (MQ=255)
acGCCTCGCAACTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTc > 1:1810679/1‑65 (MQ=255)
gCCTCGCAACTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCtt > 1:2033739/1‑69 (MQ=255)
aCTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTc < 1:4330347/71‑1 (MQ=255)
aCTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTc < 1:2459663/71‑1 (MQ=255)
ctTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCAtt > 1:437761/1‑71 (MQ=255)
ctTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCAtt > 1:1597136/1‑71 (MQ=255)
ctTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCAtt > 1:2006949/1‑71 (MQ=255)
ctTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCAtt > 1:3294970/1‑71 (MQ=255)
ctTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCAtt > 1:3094970/1‑71 (MQ=255)
ctTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAACTCCGCCTTCAGGGTATTCAtt > 1:3235692/1‑71 (MQ=255)
tGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCAtt < 1:2545893/68‑1 (MQ=255)
tGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTtc > 1:825243/1‑71 (MQ=255)
ttttCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTtct < 1:3383803/70‑1 (MQ=255)
cGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCgg < 1:1295827/71‑1 (MQ=255)
cGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCgg < 1:2153974/71‑1 (MQ=255)
gTTGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCgg < 1:137379/67‑1 (MQ=255)
ttGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTAtt < 1:1974221/51‑1 (MQ=255)
ttGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTAtt < 1:3737970/51‑1 (MQ=255)
tGCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc > 1:575075/1‑71 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCTCCTTCAGGGTATTCATTTTCTCACCCGGTa > 1:4282444/1‑66 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGtg < 1:3794330/70‑2 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc > 1:2792456/1‑70 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc < 1:606966/70‑1 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc > 1:4271754/1‑70 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc > 1:3163246/1‑70 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc > 1:263722/1‑70 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc < 1:2602647/70‑1 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc < 1:2515189/70‑1 (MQ=255)
gCTTAATAATGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTc < 1:3283110/70‑1 (MQ=255)
taataaTGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCAccc > 1:3577428/1‑59 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCAcc > 1:3684020/1‑53 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGa > 1:682846/1‑70 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGa > 1:2280762/1‑70 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGAt < 1:4287938/71‑1 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGAt < 1:2987846/71‑1 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGAt < 1:3074430/71‑1 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGAt < 1:425007/71‑1 (MQ=255)
atGGCGCGCACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGAt < 1:2181805/71‑1 (MQ=255)
gcgcgcACCTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGATAAc > 1:3055174/1‑71 (MQ=255)
ccTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGAt < 1:3808383/61‑1 (MQ=255)
ccTGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGATAACGGCAAtg < 1:4537787/71‑1 (MQ=255)
tGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCa > 1:1383807/1‑39 (MQ=255)
tGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCa > 1:4242114/1‑39 (MQ=255)
tGCGAGGCAAAGTCCGCCTTCAGGGTATTCATTTTCTCa > 1:3798795/1‑39 (MQ=255)
gCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTa > 1:3803346/1‑40 (MQ=255)
gCAAAGTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGATAACGGCAATGTTGTCCa < 1:538403/70‑1 (MQ=255)
|
AACACCACGCCTCGCAACTCTTTGTTTTCACGGAGTTGCTTAATAATGGCGCGCACCTGCGAGGCAAACTCCGCCTTCAGGGTATTCATTTTCTCACCCGGTACGTCGATGGTGATAACGGCAATGTTGTCCA > W3110S.gb/2464436‑2464568
|
| 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
