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 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,736,671 |
T→C |
57.5% |
F605F (TTT→TTC) |
fusA → |
protein chain elongation factor EF‑G |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,736,671 | 0 | T | C | 57.5%
| 35.4
/ 90.6
| 73 | F605F (TTT→TTC) | fusA | protein chain elongation factor EF‑G |
| Reads supporting (aligned to +/- strand): ref base T (14/17); new base C (19/23); total (33/40) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.03e-01 |
ACCATGACGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCGGAAGAGAACACC > minE/2736604‑2736740
|
aCCATGACGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCttt > 1:3377618/1‑68 (MQ=255)
ccATGACGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGa < 1:3181238/71‑1 (MQ=255)
ccATGACGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGa < 1:2776423/71‑1 (MQ=255)
ccATGACGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGa < 1:2300109/71‑1 (MQ=255)
cATGACGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGaa < 1:2615197/71‑1 (MQ=255)
aCGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGc < 1:1897531/70‑1 (MQ=255)
gTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGa > 1:1546699/1‑70 (MQ=255)
tcctcTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGa < 1:3433950/58‑1 (MQ=255)
ctctGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTc > 1:1227680/1‑71 (MQ=255)
ctctGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTc > 1:968382/1‑71 (MQ=255)
ctctGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTc > 1:2852884/1‑71 (MQ=255)
ctctGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTc > 1:1524039/1‑71 (MQ=255)
tctGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAg < 1:3187200/67‑1 (MQ=255)
tGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGc > 1:3182501/1‑71 (MQ=255)
tGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCttc > 1:620241/1‑69 (MQ=255)
aaCTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGaaa < 1:771227/53‑1 (MQ=255)
aaCTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCtt < 1:1830009/71‑1 (MQ=255)
aaCTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCtt > 1:2351908/1‑71 (MQ=255)
aaCTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCtt < 1:1433779/71‑1 (MQ=255)
aaCTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCtt < 1:433635/71‑1 (MQ=255)
aCTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCtt < 1:2291080/70‑1 (MQ=255)
aCTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTg < 1:437374/71‑1 (MQ=255)
tGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAg < 1:743721/60‑1 (MQ=255)
tGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAg < 1:3670699/60‑1 (MQ=255)
tGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAg > 1:685702/1‑71 (MQ=255)
tGGCGATTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCaa > 1:546430/1‑46 (MQ=38)
tttAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGa < 1:3650605/49‑1 (MQ=255)
tttAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGa < 1:415516/49‑1 (MQ=255)
ttAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAAcc > 1:1565899/1‑52 (MQ=255)
ttAAACTGGATGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGAt > 1:2076931/1‑70 (MQ=255)
tAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAg > 1:1459782/1‑53 (MQ=255)
tAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAg > 1:2033001/1‑53 (MQ=255)
tAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGa < 1:2188254/68‑1 (MQ=255)
aaCTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCAt > 1:2454162/1‑70 (MQ=255)
aaCTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATg < 1:722417/71‑1 (MQ=255)
aCTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGa < 1:3604941/71‑1 (MQ=255)
aCTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCAt > 1:497630/1‑69 (MQ=255)
gctgctTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGa < 1:1497150/67‑1 (MQ=255)
gctgctTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTCCTGCTTGAGCCGATCATGa < 1:1418699/67‑1 (MQ=255)
ctTCTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTg < 1:642329/69‑1 (MQ=255)
tCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAg > 1:3647517/1‑70 (MQ=255)
cTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAg > 1:1854589/1‑69 (MQ=255)
cTATCGCCTTTAAAGAAGGCTTTAAAAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAg > 1:1528934/1‑69 (MQ=255)
cTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGttg > 1:193638/1‑41 (MQ=38)
cTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTc > 1:128096/1‑42 (MQ=255)
cTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTc > 1:2538731/1‑42 (MQ=255)
cTATCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAg < 1:2981759/69‑1 (MQ=255)
tCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAg < 1:2306671/69‑1 (MQ=255)
tCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTa < 1:1331567/68‑1 (MQ=255)
tCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTa < 1:1925167/68‑1 (MQ=255)
tCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTa < 1:2552403/68‑1 (MQ=255)
tCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAg < 1:695636/69‑1 (MQ=255)
tCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAg < 1:67445/69‑1 (MQ=255)
tCGCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAg < 1:2047577/69‑1 (MQ=255)
gCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGcc < 1:1757991/47‑1 (MQ=255)
gCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGcc < 1:2226219/47‑1 (MQ=255)
gCCTTTAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAAc > 1:3341979/1‑71 (MQ=255)
tttAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTc > 1:994132/1‑70 (MQ=255)
ttAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGa < 1:169597/64‑1 (MQ=255)
tAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCg > 1:2969726/1‑70 (MQ=255)
tAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGtt > 1:150364/1‑55 (MQ=255)
tAAAGAAGGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGtt > 1:3571980/1‑55 (MQ=255)
aagaagGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCGGaa < 1:682373/71‑1 (MQ=255)
aagaagGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAgg < 1:3221660/51‑1 (MQ=255)
aagaagGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAgg < 1:3054502/51‑1 (MQ=255)
agaagGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACt < 1:3236325/64‑1 (MQ=255)
gaagGCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCGGaa > 1:2991869/1‑69 (MQ=255)
agGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCGGAagag > 1:2532032/1‑70 (MQ=255)
ggCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCa > 1:670263/1‑40 (MQ=255)
ggCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCa > 1:386990/1‑40 (MQ=255)
ggCTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCa > 1:429989/1‑40 (MQ=255)
gCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACt < 1:1874375/59‑1 (MQ=255)
gCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACt < 1:511920/59‑1 (MQ=255)
cTTCAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCgg > 1:2407531/1‑62 (MQ=255)
ttAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCGGAAGAGAACAcc > 1:1381012/1‑71 (MQ=255)
|
ACCATGACGTTGACTCCTCTGAACTGGCGTTTAAACTGGCTGCTTCTATCGCCTTTAAAGAAGGCTTTAAGAAAGCGAAACCAGTTCTGCTTGAGCCGATCATGAAGGTTGAAGTAGAAACTCCGGAAGAGAACACC > minE/2736604‑2736740
|
| 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
