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 |
2,266,989 |
T→C |
39.1% |
intergenic (‑160/‑208) |
fruB ← / → setB |
fused fructose‑specific PTS enzyme IIA component and HPr component/lactose/glucose efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,266,989 | 0 | T | C | 39.1%
| 44.4
/ 81.6
| 69 | intergenic (‑160/‑208) | fruB/setB | fused fructose‑specific PTS enzyme IIA component and HPr component/lactose/glucose efflux system |
| Reads supporting (aligned to +/- strand): ref base T (19/23); new base C (16/11); total (35/34) |
| Fisher's exact test for biased strand distribution p-value = 3.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.46e-01 |
AACGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGTTATCAGCAATT > W3110S.gb/2266921‑2267056
|
aaCGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGttt < 1:4564027/71‑1 (MQ=255)
aaCGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGctt < 1:4076531/71‑1 (MQ=255)
aCGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg < 1:474141/71‑1 (MQ=255)
aCGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg < 1:1620250/71‑1 (MQ=255)
aCGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg < 1:1738853/71‑1 (MQ=255)
aCGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg < 1:4816101/71‑1 (MQ=255)
aCGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg < 1:1963402/71‑1 (MQ=255)
tttCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGa < 1:1240589/69‑1 (MQ=255)
tCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGAtgtg > 1:1392108/1‑71 (MQ=255)
cAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGAtgtg < 1:3628984/70‑1 (MQ=255)
cAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGAtgtg < 1:1339278/70‑1 (MQ=255)
aGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGtt > 1:3309929/1‑61 (MQ=255)
aGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGtt > 1:963445/1‑61 (MQ=255)
aGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGtt > 1:4840473/1‑61 (MQ=255)
gAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGATGtgc > 1:4465514/1‑68 (MQ=255)
aaaGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGca > 1:4051939/1‑71 (MQ=255)
aaGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGctt < 1:409243/59‑1 (MQ=255)
aataCTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg < 1:5139197/54‑1 (MQ=255)
aataCTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAAtttt > 1:1006233/1‑71 (MQ=255)
taCTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAAtttttt > 1:3126178/1‑71 (MQ=255)
taCTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAAtttttt > 1:4494495/1‑71 (MQ=255)
aCTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTg > 1:2725460/1‑71 (MQ=255)
aCTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTg > 1:831222/1‑71 (MQ=255)
ttCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGa > 1:326758/1‑50 (MQ=255)
tGTTTCAGCACGCAAGTAAAGCCGTAAAGTTATGAGCAAAAGttt < 1:3088703/45‑1 (MQ=255)
tttCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg < 1:4265771/44‑1 (MQ=255)
tttCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCAtttt < 1:2141078/71‑1 (MQ=255)
tttCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCAtttt > 1:1687162/1‑71 (MQ=255)
ttCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCAttttt > 1:2579476/1‑71 (MQ=255)
ttCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCAttttt > 1:512098/1‑71 (MQ=255)
aGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTg > 1:1331366/1‑40 (MQ=255)
aGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGa > 1:273231/1‑41 (MQ=255)
cGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGctt < 1:4208049/35‑1 (MQ=255)
cGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAAtt > 1:3332700/1‑71 (MQ=255)
gCAAGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTg < 1:3843446/71‑1 (MQ=255)
cAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGa < 1:263630/35‑1 (MQ=255)
aaGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCt > 1:4699648/1‑71 (MQ=255)
aGGAAAGCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCt > 1:1680711/1‑70 (MQ=255)
ggAAAGCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACaa > 1:4187286/1‑44 (MQ=255)
aaGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATgg > 1:2357256/1‑71 (MQ=255)
aaGCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATgg < 1:2769778/71‑1 (MQ=255)
aGCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATgg > 1:448281/1‑70 (MQ=255)
gCCGTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGa < 1:52202/71‑1 (MQ=255)
ccGTAAAGTTATGAGCAAAAGTTTGATGTGCTTCACAAtttt < 1:966764/42‑1 (MQ=255)
gTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCAt < 1:4743956/47‑1 (MQ=255)
gTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCAt < 1:890767/47‑1 (MQ=255)
gTAAAGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGaaaa < 1:191861/71‑1 (MQ=255)
tAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCt < 1:2913733/53‑1 (MQ=255)
tAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCt < 1:2443196/53‑1 (MQ=255)
tAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAAt > 1:3898120/1‑71 (MQ=255)
tAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAAt > 1:551657/1‑71 (MQ=255)
tAAAGTCATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCAt < 1:1573666/46‑1 (MQ=255)
aaGTTATGAGCAAAAGTTTGATGTGCTGCACAAttttt > 1:2266735/1‑38 (MQ=255)
aaGTTATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATcc > 1:4759421/1‑71 (MQ=255)
ttATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGtt < 1:2811805/71‑1 (MQ=255)
ttATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGtt < 1:2235904/71‑1 (MQ=255)
ttATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGtt < 1:4642320/71‑1 (MQ=255)
ttATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGaa < 1:684177/63‑1 (MQ=255)
ttATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGaa < 1:99503/63‑1 (MQ=255)
ttATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGtt < 1:491420/71‑1 (MQ=255)
ttATGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTCATGGGaa < 1:2129279/63‑1 (MQ=255)
tATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGTTa > 1:2867051/1‑71 (MQ=255)
aTGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGc > 1:1863531/1‑52 (MQ=255)
aTGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGc > 1:3295721/1‑52 (MQ=255)
aTGAGCAAAAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGc > 1:3146152/1‑52 (MQ=255)
tGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGTTAt > 1:4847259/1‑70 (MQ=255)
aGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTaa > 1:4789576/1‑45 (MQ=255)
aGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTaa > 1:934840/1‑45 (MQ=255)
aGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTaa > 1:4073569/1‑45 (MQ=255)
cAACAGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGTTATCAGc < 1:4679823/70‑1 (MQ=255)
cAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCt < 1:1970119/41‑1 (MQ=255)
cAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCt < 1:1924943/41‑1 (MQ=255)
cAAAAGCTTGATGTGCTGGACAATTTTTTGCCATTTTTc < 1:1027292/39‑1 (MQ=37)
aaaaGTTTTATGTGCTGCACAATTTTTTGCCATTTTTCCt < 1:1289742/40‑1 (MQ=255)
aaaGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTaa > 1:4482010/1‑41 (MQ=255)
aaaGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTaa > 1:913891/1‑41 (MQ=255)
aaGCTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGTTATCAGCAatt > 1:4626194/1‑71 (MQ=255)
|
AACGTTTCAAGAAAGCATAATACTTCTGTTTCAGCACGCAAGGAAAGCCGTAAAGTTATGAGCAAAAGTTTGATGTGCTGCACAATTTTTTGCCATTTTTCCTAATTGCTGATGGGAAAATCCGTTATCAGCAATT > W3110S.gb/2266921‑2267056
|
| 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
