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 |
1,691,217 |
G→A |
27.3% |
A310T (GCA→ACA) |
manA → |
mannose‑6‑phosphate isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,691,217 | 0 | G | A | 27.3%
| 93.9
/ 36.2
| 55 | A310T (GCA→ACA) | manA | mannose‑6‑phosphate isomerase |
| Reads supporting (aligned to +/- strand): ref base G (25/15); new base A (4/11); total (29/26) |
| Fisher's exact test for biased strand distribution p-value = 3.21e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCCAATGTGAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATAAAGA > W3110S.gb/1691153‑1691284
|
tGCCAATGTGAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTACAGaa > 1:2084860/1‑70 (MQ=255)
ccAATGTGAAATTCGAAGCCAAACCGTCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTg < 1:1301932/71‑1 (MQ=255)
cAATGTGAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCAGGTGAAACAAGGTACAGAACTgg < 1:255568/71‑1 (MQ=255)
aTGTGAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTACAGAACTGGAc > 1:2930711/1‑71 (MQ=255)
aTGTGAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCAGTGAAACAAGGTGCAGAACTGGAc > 1:1651322/1‑71 (MQ=255)
tgtgAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGaa > 1:2591147/1‑64 (MQ=255)
tgtgAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGaa > 1:2243859/1‑64 (MQ=255)
tgtgAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGaa > 1:2790716/1‑64 (MQ=255)
tgAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTc > 1:5073054/1‑71 (MQ=255)
tgAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTc > 1:3400828/1‑71 (MQ=255)
tgAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTACAGAACTGGACTTc < 1:4542517/71‑1 (MQ=255)
aaaTTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTACAGAACTGGACt > 1:2388244/1‑67 (MQ=255)
aaaTTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTACAGAACTGGACTTccc < 1:2086748/71‑1 (MQ=255)
aaTTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTccc > 1:5011433/1‑70 (MQ=255)
aTTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAg < 1:3087023/56‑1 (MQ=255)
ttCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAg < 1:2712783/55‑1 (MQ=255)
cGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGAc > 1:5049426/1‑61 (MQ=255)
cGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTc > 1:3842100/1‑71 (MQ=255)
gCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTACAGAACTGGACTTCCCGATTCCAGt > 1:345335/1‑71 (MQ=255)
aaaCCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTg > 1:3595446/1‑43 (MQ=255)
cGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGgatgat > 1:1652420/1‑71 (MQ=255)
gCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGAttt > 1:2184097/1‑71 (MQ=255)
gCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGAttt > 1:1869670/1‑71 (MQ=255)
gCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGCTGCAGAACTGGACTTCCCGATTCCAGTGGATGAttt > 1:2209284/1‑71 (MQ=255)
ccAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCt > 1:2649536/1‑71 (MQ=255)
cAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCtt < 1:2477422/71‑1 (MQ=255)
cAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCtt < 1:2322298/71‑1 (MQ=255)
cAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCtt < 1:30493/71‑1 (MQ=255)
ttgttgACCCAGCCGGTGAAACAAGGTACAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTtctc < 1:2650364/71‑1 (MQ=255)
gttgACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTcc > 1:4722835/1‑41 (MQ=255)
cccAGCCGGTGAAACAAGGTACAGAACTGGACTTCCCGATTcc < 1:115680/43‑1 (MQ=255)
cAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGa > 1:3721562/1‑71 (MQ=255)
cGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCt > 1:1227222/1‑70 (MQ=255)
cGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGAACt > 1:3226473/1‑70 (MQ=255)
ggTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGAtt < 1:3008268/47‑1 (MQ=255)
gTGAAACAAGGTACAGAACTGGACTTCCCGATTCCAGTGgat < 1:4737855/42‑1 (MQ=255)
gTGAAACAAGGTACAGAACTGGACTTCCCGATTCCAGTGgat < 1:4039049/42‑1 (MQ=255)
gTGAAACAAGGTACAGAACTGGACTTCCCGATTCCAGTGgat < 1:1198930/42‑1 (MQ=255)
gTGAAACAAGGTACAGAACTGGACTTCCCGATTCCAGTGgat < 1:1055563/42‑1 (MQ=255)
tGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGAtttt > 1:4254415/1‑47 (MQ=255)
tGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGAtttt > 1:1904061/1‑47 (MQ=255)
tGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCt < 1:1517126/67‑1 (MQ=255)
tGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGt < 1:3528256/71‑1 (MQ=255)
tGAAACAAGGTGCAGAACTGGACTTCACGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGt < 1:3478506/71‑1 (MQ=255)
aaaCAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTg > 1:346540/1‑70 (MQ=255)
aaaCAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGa > 1:3040398/1‑71 (MQ=255)
aaCAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGAt < 1:266969/71‑1 (MQ=255)
aaCAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGAt < 1:4724775/71‑1 (MQ=255)
aCAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATa < 1:747009/71‑1 (MQ=255)
aCAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATa < 1:1511321/71‑1 (MQ=255)
aCAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATa < 1:3665251/71‑1 (MQ=255)
aGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAg > 1:1349717/1‑63 (MQ=255)
aGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATa > 1:1343713/1‑68 (MQ=255)
aGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATa > 1:550980/1‑68 (MQ=255)
ggTACAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCtt < 1:3839051/60‑1 (MQ=255)
ggTACAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATAAAGa < 1:3434653/71‑1 (MQ=255)
|
TGCCAATGTGAAATTCGAAGCCAAACCGGCTAACCAGTTGTTGACCCAGCCGGTGAAACAAGGTGCAGAACTGGACTTCCCGATTCCAGTGGATGATTTTGCCTTCTCGCTGCATGACCTTAGTGATAAAGA > W3110S.gb/1691153‑1691284
|
| 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
