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 |
|
A0 F1 I1 R1
|
7 |
175.1 |
22577466 |
95.2% |
21493747 |
37.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,875,632 |
(T)7→8 |
intergenic (‑66/+287) |
glmU ← / ← atpC |
bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,875,625 | 1 | . | T | 97.7%
| 299.9
/ 1.1
| 88 | intergenic (‑59/+294) | glmU/atpC | bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base T (50/36); total (51/37) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
Only 100 of 122 total aligned reads displayed.
GAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑TTTTTTTCATCGTGAAATGGACAGAGGATAA > REL606/3875589‑3875656
|
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑a > 2:10011937/1‑37 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑a < 1:6621262/37‑1 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑t > 1:11185962/1‑37 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑t > 2:4667465/1‑37 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑t < 2:1160946/37‑1 (MQ=255)
aaCAAATTTAAGCCGCTTCACCTTGAAAAAACTAC‑A‑t < 1:8363697/37‑1 (MQ=37)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tt < 2:3135307/37‑1 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttt < 2:2734703/37‑1 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttt < 1:10724310/37‑1 (MQ=255)
cGAATTAAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttt < 1:4837531/37‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttt > 2:4021883/1‑37 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttt < 1:3129304/37‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttt > 2:5418152/1‑37 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttt < 1:7991594/37‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttt < 1:1626909/37‑1 (MQ=255)
gAATTTAAACCGCTGCACCTTGAAAAAACTAC‑A‑tttt > 1:2152732/1‑37 (MQ=255)
gAATTAAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttt < 1:4694439/37‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttttt > 2:1228027/1‑37 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttttt > 1:8225537/1‑37 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttttt < 1:9386725/37‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttttt < 2:9379304/37‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttttt < 2:285990/37‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttttt < 2:8256814/37‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttttt > 2:948232/1‑37 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttttt > 2:2991255/1‑37 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttttt > 2:7608443/1‑37 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttttt < 1:3999500/37‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTAC‑A‑ttttttt > 1:9504876/1‑37 (MQ=255)
ttAAGCCGCTTCACCTTGAAAAAACTAC‑A‑tttttttt < 2:3146877/37‑2 (MQ=38)
ttAAACCGCTTCACCTTGAAAAAACTAC‑A‑tttttttt > 2:9163945/1‑36 (MQ=255)
cGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGt < 2:4986854/37‑1 (MQ=37)
cGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGt > 1:9724783/1‑37 (MQ=37)
cGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGt > 1:2384186/1‑37 (MQ=37)
cGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGt > 1:2413686/1‑37 (MQ=37)
cGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGt > 1:5273778/1‑37 (MQ=37)
cGCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGt > 1:4376679/1‑37 (MQ=37)
gCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCNTCGTg < 2:10613718/37‑1 (MQ=37)
gCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTg < 2:8764796/37‑1 (MQ=37)
gCTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTg > 1:2913823/1‑37 (MQ=37)
cTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGa > 1:7792418/1‑37 (MQ=37)
cTTCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGa > 2:2335729/1‑37 (MQ=37)
ttCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa < 2:2915962/37‑1 (MQ=37)
ttCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa < 2:4703711/37‑1 (MQ=37)
ttCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa < 1:9504504/37‑1 (MQ=37)
ttCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa < 1:7024181/37‑1 (MQ=37)
ttCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa < 1:11140892/37‑1 (MQ=37)
ttCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaa > 2:7312756/1‑37 (MQ=37)
tCACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaaa > 2:660092/1‑37 (MQ=37)
ccACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGaaa > 1:5158732/2‑37 (MQ=37)
cACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAAt < 1:3663191/37‑1 (MQ=37)
cACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAAt > 2:4029145/1‑37 (MQ=37)
cACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAAt < 1:7538234/37‑1 (MQ=37)
cACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAAt > 2:7705781/1‑37 (MQ=37)
cACCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAAt < 1:6616661/37‑1 (MQ=37)
aCCTTGAAAAAACTACGT‑TTTTTTTCATCGTGAAATg < 1:534331/37‑1 (MQ=25)
aCCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATg > 1:2514226/1‑37 (MQ=37)
aCCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATg > 1:1811166/1‑37 (MQ=37)
aCCTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATg > 2:10791677/1‑37 (MQ=37)
ccTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg < 1:5438818/37‑1 (MQ=37)
ccTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg > 2:1196125/1‑37 (MQ=37)
ccTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg < 2:10376993/37‑1 (MQ=37)
ccTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg > 1:4698800/1‑37 (MQ=37)
ccTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg > 2:6061674/1‑37 (MQ=37)
ccTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg < 1:1170283/37‑1 (MQ=37)
ccTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATgg < 2:4007016/37‑1 (MQ=37)
cTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGa > 1:10404480/1‑37 (MQ=37)
cTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGa > 2:8222079/1‑37 (MQ=37)
cTTGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGa > 1:7572830/1‑37 (MQ=37)
ttGAAAAAACTAC‑A‑TTTTTTTCATCGTGAAATGGACa > 1:8782687/1‑37 (MQ=255)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa < 2:9721241/37‑1 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa > 2:620158/1‑37 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa < 2:6543760/37‑1 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa > 2:2452090/1‑37 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa > 2:10446051/1‑37 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa > 1:4608416/1‑37 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa < 1:9681009/37‑1 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa < 1:5681578/37‑1 (MQ=37)
tGAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACa > 1:6553635/1‑37 (MQ=37)
gAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACag > 1:2243943/1‑37 (MQ=37)
gAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACag > 1:2843210/1‑37 (MQ=37)
gAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACag > 2:10763302/1‑37 (MQ=37)
gAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACag > 2:5040815/1‑37 (MQ=37)
gAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACag < 1:3002303/37‑1 (MQ=37)
gAAAAAACTAC‑ATTTTTTTTCATCGTGAAATGGACag < 2:10085916/37‑1 (MQ=37)
aaaaaaCTAC‑ATTTTTTTTCATCGTGAAATGGACaga < 2:6904331/37‑1 (MQ=37)
aaaaaCTAC‑ATTTTTTTTTATCGTGAAATGGACagag < 1:10502643/37‑1 (MQ=25)
aaaaaCTAC‑ATTTTTTTTCATCGTGAAATGGACagag < 2:6095598/37‑1 (MQ=37)
aaaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAgg < 2:5740691/37‑1 (MQ=37)
aaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGa > 2:621003/1‑37 (MQ=37)
aaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGa < 1:422542/37‑1 (MQ=37)
aaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGa < 2:452024/37‑1 (MQ=37)
aaaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGa > 2:3599848/1‑37 (MQ=37)
aaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGAt > 1:6674708/1‑37 (MQ=37)
aaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGAt > 2:8086825/1‑37 (MQ=37)
aaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGAt > 2:1843255/1‑37 (MQ=37)
aaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGAt > 1:1819449/1‑37 (MQ=37)
aaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGAt > 1:1557840/1‑37 (MQ=37)
aaCTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGAt > 2:9502474/1‑37 (MQ=37)
cTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATaa < 2:6969091/37‑1 (MQ=37)
cTAC‑ATTTTTTTTCATCGTGAAATGGACAGAGGATaa < 1:8236712/37‑1 (MQ=37)
|
GAACGAATTTAAACCGCTTCACCTTGAAAAAACTAC‑A‑TTTTTTTCATCGTGAAATGGACAGAGGATAA > REL606/3875589‑3875656
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
