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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,007,077 |
C→T |
34.7% |
N304N (AAC→AAT) |
ygeX → |
2,3‑diaminopropionate ammonia‑lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,007,077 | 0 | C | T | 34.7%
| 88.1
/ 72.9
| 75 | N304N (AAC→AAT) | ygeX | 2,3‑diaminopropionate ammonia‑lyase |
| Reads supporting (aligned to +/- strand): ref base C (28/21); new base T (17/9); total (45/30) |
| Fisher's exact test for biased strand distribution p-value = 6.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGCCACCATCATGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGTGCTGGGTAAT > W3110S.gb/3007010‑3007143
|
tGGCCACCATCATGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTgc > 1:756289/1‑71 (MQ=255)
tGGCCACCATCATGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTg < 1:3705075/70‑1 (MQ=255)
gCCACCATCATGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTgcgc < 1:951175/71‑1 (MQ=255)
atcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTgcg > 1:752984/1‑64 (MQ=255)
atcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCAccc > 1:1150757/1‑70 (MQ=255)
atcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCAccc > 1:4372790/1‑70 (MQ=255)
atcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCAccc > 1:4559775/1‑70 (MQ=255)
atcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCAccc > 1:2621546/1‑70 (MQ=255)
tcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCaa > 1:4142527/1‑71 (MQ=255)
tcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCaa > 1:427842/1‑71 (MQ=255)
tcatGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCaa < 1:3333118/71‑1 (MQ=255)
atGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAAtt > 1:3168549/1‑71 (MQ=255)
atGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAAtt > 1:4279709/1‑71 (MQ=255)
atGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAAtt > 1:2672611/1‑71 (MQ=255)
atGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAAtt > 1:2984530/1‑71 (MQ=255)
atGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAAtt > 1:4494349/1‑71 (MQ=255)
atGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAAt > 1:3375460/1‑70 (MQ=255)
gCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCAt > 1:580984/1‑71 (MQ=255)
gCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCa < 1:692220/70‑1 (MQ=255)
cAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTgcgc > 1:3825202/1‑58 (MQ=255)
cAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCAtc < 1:4324490/71‑1 (MQ=255)
ctggcctgTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTg < 1:627204/71‑1 (MQ=255)
gcctgTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAAtt > 1:3004159/1‑59 (MQ=255)
gcctgTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAAtt > 1:977602/1‑59 (MQ=255)
gcctgTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGcc < 1:937287/70‑1 (MQ=255)
cctgTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAg < 1:1786883/71‑1 (MQ=255)
tgtgGCGAACCTAACCCGCTGGGCTGTGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAg < 1:3246919/69‑1 (MQ=255)
tgtgGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAAtt < 1:1932300/56‑1 (MQ=255)
tgGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGa < 1:3531606/69‑1 (MQ=255)
tgGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGAc < 1:1979902/70‑1 (MQ=255)
gCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACacc > 1:5118713/1‑69 (MQ=255)
gCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGc > 1:3619311/1‑71 (MQ=255)
gCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGc > 1:2415207/1‑71 (MQ=255)
gCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGc > 1:3400642/1‑71 (MQ=255)
cGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCg < 1:1254018/71‑1 (MQ=255)
aaCCTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGtt > 1:1972103/1‑71 (MQ=255)
aaCCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAg > 1:5079525/1‑62 (MQ=255)
ccTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGt > 1:648151/1‑68 (MQ=255)
ccTAACCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGt > 1:395557/1‑68 (MQ=255)
aaCCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCa > 1:174927/1‑46 (MQ=255)
aaCCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGt > 1:2097405/1‑65 (MQ=255)
aaCCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCg > 1:1635206/1‑70 (MQ=255)
aaCACGCTGGGCTGGGAAATCCTACGTAACTgcgc > 1:2376084/1‑35 (MQ=255)
aCCCGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCg < 1:4131919/69‑1 (MQ=255)
aCCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGc < 1:3578044/70‑1 (MQ=255)
cccGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCAt < 1:3900419/71‑1 (MQ=255)
cccGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCAt < 1:447309/71‑1 (MQ=255)
cccGCTGGGCTGGGAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCAt < 1:3412895/71‑1 (MQ=255)
cccGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTc < 1:972329/43‑1 (MQ=255)
cccGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTc < 1:4672807/43‑1 (MQ=255)
ccGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCAtt < 1:167009/71‑1 (MQ=255)
ccGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCAt < 1:2816502/70‑1 (MQ=255)
cGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCAt > 1:2992933/1‑69 (MQ=255)
ctgggctgggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAgg < 1:764941/71‑1 (MQ=255)
ctgggctgggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAgg < 1:3043408/71‑1 (MQ=255)
tgggctgggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAgg < 1:4735290/70‑1 (MQ=255)
gggctgggAAATCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAg > 1:939375/1‑68 (MQ=255)
gggctgggAAATCCTACGTAACTGCGCCACCCAATTCa > 1:2541195/1‑38 (MQ=255)
gggctgggAAATCCTACGTAACTGCGCCACCCAATTCAt > 1:4861570/1‑39 (MQ=255)
tgggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGcag > 1:4248010/1‑42 (MQ=255)
tgggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAg > 1:510704/1‑45 (MQ=255)
gggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATgcgc > 1:2228707/1‑71 (MQ=255)
gggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATgcgc > 1:3947261/1‑71 (MQ=255)
ggAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGcgcg > 1:1611359/1‑71 (MQ=255)
aaaTCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAgg > 1:2893701/1‑61 (MQ=255)
aaaTCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGTg > 1:943022/1‑71 (MQ=255)
aTCCTACGTAATTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGTGCt < 1:2455454/71‑1 (MQ=255)
aTCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGTGCt > 1:994824/1‑71 (MQ=255)
tCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATg < 1:2661246/62‑1 (MQ=255)
tCCTACGAAATTGCGCCACCCAATTCATCTCCTGcc > 1:4757669/1‑36 (MQ=37)
ccTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGTGCTgg > 1:2816852/1‑71 (MQ=255)
cTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGt < 1:2328541/65‑1 (MQ=255)
cTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGt < 1:3224952/65‑1 (MQ=255)
cGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTga > 1:1262803/1‑43 (MQ=255)
tAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGTGCTGGGTatt < 1:4785004/70‑3 (MQ=255)
|
TGGCCACCATCATGGCAGGCCTGGCCTGTGGCGAACCTAACCCGCTGGGCTGGGAAATCCTACGTAACTGCGCCACCCAATTCATCTCCTGCCAGGACAGCGTTGCCGCATTAGGTATGCGCGTGCTGGGTAAT > W3110S.gb/3007010‑3007143
|
| 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
