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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,709,115 |
C→T |
17.1% |
E138E (GAG→GAA) |
asnA ← |
asparagine synthetase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,709,115 | 0 | C | T | 17.1%
| 100.4
/ 13.0
| 41 | E138E (GAG→GAA) | asnA | asparagine synthetase A |
| Reads supporting (aligned to +/- strand): ref base C (22/12); new base T (3/4); total (25/16) |
| Fisher's exact test for biased strand distribution p-value = 4.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGAACGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTCCCAC > W3110S.gb/3709048‑3709181
|
ggAACGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGcc < 1:2479936/68‑1 (MQ=255)
aaCGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCctct < 1:2727125/69‑1 (MQ=255)
aaCGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCctct < 1:1350141/69‑1 (MQ=255)
aaCGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCctct > 1:410953/1‑69 (MQ=255)
aaCGGTGCCAGGCCAAACTCTCCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCctct > 1:2014038/1‑69 (MQ=255)
aCGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCctct > 1:1139637/1‑68 (MQ=255)
aCGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTa > 1:1092624/1‑69 (MQ=255)
aCGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTa > 1:321861/1‑69 (MQ=255)
aCGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCAAGATCGCCTCTa > 1:3386458/1‑69 (MQ=255)
gCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTg > 1:7167/1‑69 (MQ=255)
aGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCtt < 1:2227325/69‑1 (MQ=255)
aGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCtt < 1:2944614/69‑1 (MQ=255)
ccAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCtt > 1:1756175/1‑66 (MQ=255)
cAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCtttt > 1:958541/1‑67 (MQ=255)
cAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCtttt > 1:2823333/1‑67 (MQ=255)
cAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCa < 1:367633/69‑1 (MQ=255)
ctctTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCtt < 1:962905/61‑1 (MQ=255)
ctctTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCagag > 1:1978028/1‑68 (MQ=255)
ctctTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCagag > 1:2752143/1‑68 (MQ=255)
ctTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCagag > 1:3189672/1‑66 (MQ=255)
ctTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCagag > 1:2939997/1‑66 (MQ=255)
ctTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCagag > 1:3389613/1‑66 (MQ=255)
ttCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCTTCTACCGTGCTTTTCAGAGTCg > 1:1750133/1‑68 (MQ=255)
ttCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCTTCTACCGTGCTTTTCAGAGTCg > 1:1130256/1‑68 (MQ=255)
cGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCaga < 1:222337/55‑1 (MQ=255)
cGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCaga > 1:3654818/1‑55 (MQ=255)
cGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCaga < 1:1266235/55‑1 (MQ=255)
gCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCa < 1:3509460/69‑1 (MQ=255)
ttCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAAtt > 1:205553/1‑59 (MQ=255)
gCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGccc > 1:2622717/1‑69 (MQ=255)
gCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGccc > 1:2524589/1‑69 (MQ=255)
gCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGccc > 1:3300098/1‑69 (MQ=255)
gCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTcc < 1:2737015/69‑1 (MQ=255)
gCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTcc < 1:623233/69‑1 (MQ=255)
gCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTcc < 1:2508251/69‑1 (MQ=255)
gCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTcc < 1:2217812/69‑1 (MQ=255)
cAGATCGCTTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTccc < 1:2767592/67‑1 (MQ=255)
cAGATCGCTTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTccc < 1:1904631/67‑1 (MQ=255)
cAGATCGCTTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTccc < 1:371729/67‑1 (MQ=255)
cAGATCGCTTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTccc < 1:167362/67‑1 (MQ=255)
gATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGt > 1:1501934/1‑68 (MQ=255)
tCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTccc > 1:3382276/1‑69 (MQ=255)
tCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTccc > 1:1379855/1‑69 (MQ=255)
tCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTccc > 1:111327/1‑69 (MQ=255)
cgactctACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTCCCa > 1:169500/4‑69 (MQ=255)
cGCTTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCATCGTCGCCCATTACGCGTTCCCAGTCCCa > 1:3488137/1‑69 (MQ=255)
cGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTCCCa > 1:319042/1‑69 (MQ=255)
gCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTCCCAc < 1:849614/69‑1 (MQ=255)
|
GGAACGGTGCCAGGCCAAACTCTTCGCTAACCGCAGCTTCGGTTGCTTTAATTCCCGCCCAGATCGCCTCTACCGTGCTTTTCAGAGTCGAGAATTGACGCTCACCGTCGCCCATTACGCGTTCCCAGTCCCAC > W3110S.gb/3709048‑3709181
|
| 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
