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 F17 I0 R2
|
159 |
90.8 |
4763082 |
92.7% |
4415377 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,892,177 |
G→A |
12.6% |
D278N (GAC→AAC) |
ytfQ → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,892,177 | 0 | G | A | 12.6%
| 242.2
/ 21.6
| 87 | D278N (GAC→AAC) | ytfQ | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base G (44/32); new base A (6/5); total (50/37) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.15e-01 |
AAAGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCAAATCCACCCTTTA > minE/2892108‑2892247
|
aaaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGa > 1:610956/1‑71 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCg > 1:4627829/1‑69 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGa > 1:4278533/1‑70 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGa > 1:733270/1‑70 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGa > 1:3989326/1‑70 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAc > 1:350493/1‑71 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAc > 1:3285118/1‑71 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAc > 1:515443/1‑71 (MQ=255)
aaGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAc > 1:1643416/1‑71 (MQ=255)
gCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAcg > 1:4703405/1‑70 (MQ=255)
gatggatgGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTg < 1:3489938/70‑1 (MQ=255)
atggatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCAACGCGCTg > 1:2391769/1‑69 (MQ=255)
atggatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCAACGCGCTg > 1:532468/1‑69 (MQ=255)
atggatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCAACGCGCTg > 1:1769379/1‑69 (MQ=255)
atggatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCAACGCGCTg > 1:313426/1‑69 (MQ=255)
atggatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCAACGCGCTg > 1:1549189/1‑69 (MQ=255)
tggatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTg > 1:807567/1‑68 (MQ=255)
ggatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAAGTCCCGCCTTCGACGCGCTGgag > 1:2969867/1‑70 (MQ=255)
gatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGgaga < 1:2898732/70‑1 (MQ=255)
gatggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGgaga < 1:347481/70‑1 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAcgc < 1:3789573/60‑1 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAcgc < 1:4449095/60‑1 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAcgc < 1:230630/60‑1 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGAcgc < 1:2170305/60‑1 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGaaa > 1:133106/1‑70 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGaaa > 1:2293657/1‑70 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGaaa > 1:2665994/1‑70 (MQ=255)
tggCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGaaa > 1:543985/1‑70 (MQ=255)
gcgaagcgaaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATa > 1:3042404/1‑70 (MQ=255)
gcgaagcgaaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATAc < 1:2407072/71‑1 (MQ=255)
aagcgaaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCAACGCGCTGGAGAAATACaaa < 1:4312439/71‑1 (MQ=255)
gcgaaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACaaaa > 1:557110/1‑70 (MQ=255)
gcgaaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACaaaa > 1:747872/1‑70 (MQ=255)
cgaaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACaaaaaa < 1:3338313/71‑1 (MQ=255)
gaaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGaa < 1:2465986/60‑1 (MQ=255)
aaCGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGaaa > 1:4677351/1‑60 (MQ=255)
gCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACgg < 1:1750154/71‑1 (MQ=255)
gCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACgg < 1:1577527/71‑1 (MQ=255)
ccAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAg < 1:3439561/66‑1 (MQ=255)
ccAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAg < 1:4129331/66‑1 (MQ=255)
ccAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAg < 1:4722187/66‑1 (MQ=255)
ccAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAg < 1:166448/66‑1 (MQ=255)
gtgtTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCAc > 1:3581391/1‑70 (MQ=255)
ttGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACaaaaaa < 1:4207962/59‑1 (MQ=255)
gAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAg > 1:3243045/1‑58 (MQ=255)
gAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAg > 1:4227343/1‑58 (MQ=255)
gAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACgg > 1:3763214/1‑62 (MQ=255)
cTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGa < 1:2633676/71‑1 (MQ=255)
tGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGgaga < 1:3556524/42‑1 (MQ=255)
tGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTg > 1:1519979/1‑69 (MQ=255)
aCGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGaa < 1:4707404/69‑1 (MQ=255)
gCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAACGACGGCTCCAt < 1:3018839/60‑1 (MQ=255)
gCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGaa < 1:2670975/67‑1 (MQ=255)
gCCGAATATGGCAGGTCCCGCCTTCAACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAg < 1:1860395/70‑1 (MQ=255)
ccGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCt < 1:3496803/71‑1 (MQ=255)
gAATATGGCAGGTCCCGCCTTCGACGCGCTGGGGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGa > 1:4592261/1‑71 (MQ=255)
gAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGa > 1:4433466/1‑71 (MQ=255)
gAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGa > 1:1119572/1‑71 (MQ=255)
gAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGa > 1:822826/1‑71 (MQ=255)
gAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGa > 1:2823237/1‑71 (MQ=255)
aaTATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACaaaa < 1:705372/43‑1 (MQ=255)
tatGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGt > 1:4757042/1‑71 (MQ=255)
tGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGtt > 1:678880/1‑70 (MQ=255)
tGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGtt > 1:2020452/1‑70 (MQ=255)
tGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGtt < 1:247359/70‑1 (MQ=255)
ggCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGtt < 1:2281236/69‑1 (MQ=255)
gCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGa > 1:3469718/1‑41 (MQ=255)
gCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGa > 1:3467987/1‑41 (MQ=255)
cAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCa > 1:2130979/1‑45 (MQ=255)
cAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTaa > 1:3140150/1‑69 (MQ=255)
cAGGTCCCGCCTTCAACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGATAAc > 1:2456733/1‑70 (MQ=255)
aGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCa < 1:417264/71‑1 (MQ=255)
gTCCCGCCTTCGACGCGCTTGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCaa < 1:405908/70‑1 (MQ=255)
gTCCCGCCTTCGACGCGCTGGAGAAATACaaaaaa < 1:1010086/35‑1 (MQ=255)
gTCCCGCCTTCAACGCGCTGGAGAAATACaaaaaa < 1:4727935/35‑1 (MQ=255)
gTCCCGCCTTCAACGCGCTGGAGAAATACaaaaaa < 1:3661263/35‑1 (MQ=255)
gCCTTCGCCGCGCTGGAGAAATACAAAAAAGACGGCACAATGCCTGAAAAGCTGACGTTa > 1:697651/1‑60 (MQ=255)
gCCTTCAACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCAAATCCAc < 1:4646513/71‑1 (MQ=255)
ttCGACGCGCTGGAGAAATACAAAAAAGACGGCACCa > 1:3192119/1‑37 (MQ=255)
ttCGACGCGCTGGAGAAATACAAAAAAGACGGCACCa > 1:4044984/1‑37 (MQ=255)
ttCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTa < 1:3106509/57‑1 (MQ=255)
ttCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTa < 1:1594241/57‑1 (MQ=255)
ttCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCAAATCCACCCt > 1:1649899/1‑71 (MQ=255)
tCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCAAATCCAccc < 1:4333949/69‑1 (MQ=255)
cGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAAc > 1:1931326/1‑57 (MQ=255)
cGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAAc > 1:1586103/1‑57 (MQ=255)
cGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAAc > 1:4249090/1‑57 (MQ=255)
cGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAAc > 1:2905249/1‑57 (MQ=255)
gACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGaa < 1:2676535/42‑1 (MQ=255)
gACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCAAATCCACCCttt < 1:425307/70‑1 (MQ=255)
gACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCAAATCCACCCTTTa < 1:708973/71‑1 (MQ=255)
|
AAAGCGATGATGGATGGCGAAGCGAACGCCAGTGTTGAACTGACGCCGAATATGGCAGGTCCCGCCTTCGACGCGCTGGAGAAATACAAAAAAGACGGCACCATGCCTGAAAAGCTGACGTTAACCAAATCCACCCTTTA > minE/2892108‑2892247
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
