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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
910,932 |
G→A |
24.6% |
G58S (GGC→AGC) |
ycjV → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 910,932 | 0 | G | A | 24.6%
| 123.9
/ 33.7
| 65 | G58S (GGC→AGC) | ycjV | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (35/14); new base A (4/12); total (39/26) |
| Fisher's exact test for biased strand distribution p-value = 2.45e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.63e-01 |
TTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGA > minE/910864‑910998
|
ttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcgg > 1:404954/1‑70 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcg > 1:3345148/1‑71 (MQ=255)
ccGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCt > 1:216732/1‑71 (MQ=2)
cGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTg < 1:120551/71‑1 (MQ=9)
cGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTg < 1:127381/71‑1 (MQ=9)
cGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTg < 1:1656270/71‑1 (MQ=9)
tctggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGtt < 1:281672/68‑1 (MQ=9)
tCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt > 1:5202624/1‑71 (MQ=255)
tCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt > 1:4159067/1‑71 (MQ=255)
tggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttca > 1:389365/2‑69 (MQ=16)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGt > 1:1951081/1‑68 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTg > 1:811305/1‑70 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTg < 1:5055415/70‑1 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:1129392/1‑71 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:2278525/1‑71 (MQ=255)
gCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttca < 1:1958908/69‑3 (MQ=16)
cTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCg > 1:19106/1‑71 (MQ=255)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggt < 1:245155/70‑3 (MQ=255)
tAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa < 1:3368712/71‑1 (MQ=255)
aaGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa > 1:747362/1‑70 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaaa > 1:3327204/1‑71 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:1960426/1‑71 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:4028421/1‑71 (MQ=255)
accaccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTg < 1:315964/54‑1 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg > 1:2835923/1‑70 (MQ=255)
tacTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACggatgaat > 1:4872102/3‑71 (MQ=255)
acTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACggatgaat < 1:617487/69‑1 (MQ=255)
cTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGt > 1:2493386/1‑46 (MQ=255)
cTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGt > 1:5182558/1‑46 (MQ=255)
cTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGAt > 1:3697615/1‑50 (MQ=255)
cTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACggatgaat < 1:4600486/69‑1 (MQ=255)
cTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACGGatgaatga < 1:357269/71‑1 (MQ=255)
tGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGa > 1:4463217/1‑52 (MQ=255)
tGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGa > 1:4735850/1‑52 (MQ=255)
tGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGa > 1:5325610/1‑52 (MQ=255)
tGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaaa > 1:1088077/1‑59 (MQ=255)
cgcATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGt > 1:3574296/1‑71 (MQ=255)
cgcATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCGGTGAGAAACGGatgaatga < 1:2731504/68‑1 (MQ=255)
gcATGATTGCCGGGCTTGAGGAGATCAGCGGAGGCGATCTGTTGATCGACGGCAAACgaatgaat < 1:233013/65‑1 (MQ=255)
aTGATTGCCGGGCTTGAGACGATCACCAGCGGCGACATGtt < 1:1951221/41‑1 (MQ=12)
gATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:4874606/1‑71 (MQ=255)
gATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAg > 1:2038626/1‑71 (MQ=255)
gATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTTTTCATCggt < 1:2110753/46‑3 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGc > 1:2111343/1‑71 (MQ=255)
aTTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGc > 1:5464613/1‑71 (MQ=255)
ttGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGc > 1:3299400/1‑70 (MQ=255)
ttGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGc > 1:5085129/1‑70 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:2537131/1‑53 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGcc > 1:3391508/1‑70 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGcc > 1:5360278/1‑70 (MQ=255)
tGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGcc > 1:3397989/1‑70 (MQ=255)
gCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg < 1:2574722/54‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatgaat > 1:4148776/1‑53 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatgaat > 1:3226819/1‑53 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCa < 1:5373925/66‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCa < 1:3291440/66‑1 (MQ=255)
ggCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCa > 1:1218710/1‑71 (MQ=255)
ttGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:446288/43‑1 (MQ=255)
ttGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACg < 1:2853669/43‑1 (MQ=255)
tGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGc > 1:4399760/1‑70 (MQ=255)
aggagATCAGCGGCGGCGATCTGTTGATCGACTGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCaa < 1:1740306/70‑1 (MQ=255)
aggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCa > 1:2164008/1‑56 (MQ=255)
aggagATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCa > 1:2190602/1‑56 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:4989657/52‑1 (MQ=255)
gagaTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTc < 1:2626302/52‑1 (MQ=255)
aTCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAg < 1:5521638/58‑1 (MQ=255)
aGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGa < 1:3411660/70‑1 (MQ=255)
ggcggcgATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGa < 1:2257622/67‑1 (MQ=255)
ggcggcgATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGa < 1:3307363/67‑1 (MQ=255)
|
TTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATGAATGACGTTCCAGCCAAAGCACGCAATATAGCGA > minE/910864‑910998
|
| 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
