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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,369,021 |
G→A |
76.8% |
L460L (TTG→TTA) |
fadB → |
fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,369,021 | 0 | G | A | 76.8%
| 72.4
/ 17.7
| 60 | L460L (TTG→TTA) | fadB | fused 3‑hydroxybutyryl‑CoA epimerase/delta(3)‑cis‑delta(2)‑trans‑enoyl‑CoA isomerase/enoyl‑CoA hydratase and 3‑hydroxyacyl‑CoA dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base G (10/4); new base A (20/26); total (30/30) |
| Fisher's exact test for biased strand distribution p-value = 1.25e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GCTGGAACGCCCGGAAAACTTCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGAGCAA > minE/2368958‑2369089
|
gcTGGAACGCCCGGAAAACTTCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGa < 1:2004131/69‑1 (MQ=255)
cTGGAACGCCCGGAAAACTTCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGa < 1:2078232/68‑1 (MQ=255)
aaCTTCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCgag < 1:2659177/69‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:876410/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:1019684/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:2521034/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:913723/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:2359527/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:2931269/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:2976820/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:1830213/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:446945/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:1509488/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:1362401/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:52559/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:825130/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:135934/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:1268161/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:1113003/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:630827/54‑1 (MQ=255)
tCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:1115754/54‑1 (MQ=255)
cTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGAAatta < 1:2812948/53‑1 (MQ=255)
cACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGaa > 1:932399/1‑69 (MQ=255)
cACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGaa > 1:195740/1‑69 (MQ=255)
cACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGaa > 1:1222829/1‑69 (MQ=255)
cACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGaa > 1:738849/1‑69 (MQ=255)
aCTTCTTTAACCCGGTCCACCGAATGCCGTTAGTAGATatta < 1:1715002/42‑1 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:254709/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:2834154/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:284983/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:3087430/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:596048/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:3125453/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:3311788/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:3392686/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:926369/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:1069276/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:1090254/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:959251/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:1501210/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:1665160/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:919733/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:2323715/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:2622132/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:2382058/1‑51 (MQ=255)
cttTAACCCGGTCCACCGAATGCCGTTAGTAGAAATAATTCGCGGCGAGaa > 1:1305552/1‑51 (MQ=255)
cttTAACCCGGTCAACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGaa > 1:1587532/1‑51 (MQ=255)
ccGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGaaa < 1:3345192/69‑1 (MQ=255)
tCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGtcg < 1:2951936/69‑3 (MQ=255)
tCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGtcg < 1:2781882/69‑3 (MQ=255)
tCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGtcg < 1:906488/69‑3 (MQ=255)
tCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGtcg < 1:190262/69‑3 (MQ=255)
tCCACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGtcg < 1:306670/69‑3 (MQ=255)
ccACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATcgc > 1:1114317/1‑60 (MQ=255)
ccACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGt > 1:3365763/1‑69 (MQ=255)
ccACCGAATGCCATTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGt > 1:3087126/1‑69 (MQ=255)
cACCGAATGCCGTTAGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGtcg < 1:2777907/67‑3 (MQ=255)
tGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTgg > 1:2469461/1‑68 (MQ=255)
tGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTgg > 1:2234608/1‑68 (MQ=255)
tGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTgg > 1:2952478/1‑68 (MQ=255)
ggTTGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGa > 1:1805167/1‑65 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGa > 1:2688705/1‑65 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGa > 1:2852820/1‑65 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGa > 1:2740188/1‑65 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGa > 1:2130501/1‑65 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGa > 1:1364220/1‑65 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGAGCaa < 1:3291249/69‑1 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGAGCaa < 1:1153365/69‑1 (MQ=255)
ggTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGAGCaa < 1:987194/69‑1 (MQ=255)
|
GCTGGAACGCCCGGAAAACTTCTGCGGGATGCACTTCTTTAACCCGGTCCACCGAATGCCGTTGGTAGAAATTATTCGCGGCGAGAAAAGCTCCGACGAAACCATCGCGAAAGTTGTCGCCTGGGCGAGCAA > minE/2368958‑2369089
|
| 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
