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 |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,071,423 |
+A |
coding (335/1296 nt) |
glgC → |
glucose‑1‑phosphate adenylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,071,419 | 1 | . | A | 96.2%
| 238.8
/ 3.8
| 80 | coding (331/1296 nt) | glgC | glucose‑1‑phosphate adenylyltransferase |
| Reads supporting (aligned to +/- strand): ref base . (0/3); new base A (51/26); total (51/29) |
| Fisher's exact test for biased strand distribution p-value = 4.45e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
ATGAAGAAATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGTTATAAAGC > W3110S.gb/4071363‑4071486
|
aTGAAGAAATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑aaaa < 1:2240045/61‑1 (MQ=255)
aTGAAGAAATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑aaaa < 1:2271367/61‑1 (MQ=255)
aTGAAGAAATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑aaaa < 1:2483123/61‑1 (MQ=255)
aTGAAGAAATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑aaaa < 1:3356088/61‑1 (MQ=255)
gaagaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑aaaaac > 1:1029366/1‑59 (MQ=255)
gaagaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑aaaaac > 1:1791354/1‑59 (MQ=255)
gaagaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑aaaaac > 1:2943866/1‑59 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:3650380/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:332496/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:3173948/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:3087400/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:3731116/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:2535132/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:519533/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:117614/1‑71 (MQ=255)
gaaATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCa > 1:1903038/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:3538104/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:36686/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:2527648/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:988303/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:2112400/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:2082153/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:1093478/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:1127960/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:1667825/1‑71 (MQ=255)
aTGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:1654283/1‑71 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:1470808/1‑70 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:4053087/1‑70 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:3895563/1‑70 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:1457918/1‑70 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:316080/1‑70 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:294274/1‑70 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:2261225/1‑70 (MQ=255)
tGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCg > 1:1674234/1‑70 (MQ=255)
cGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGAt > 1:1810627/1‑71 (MQ=255)
aGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGc < 1:3079418/71‑1 (MQ=255)
aGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGc < 1:4056162/71‑1 (MQ=255)
aGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGc < 1:1444146/71‑1 (MQ=255)
tGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGt < 1:59809/70‑1 (MQ=255)
tGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGt < 1:2209186/70‑1 (MQ=255)
tCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCa < 1:2912824/70‑1 (MQ=255)
tCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCa < 1:3994764/70‑1 (MQ=255)
tCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCa < 1:3619012/70‑1 (MQ=255)
tCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAc < 1:160641/71‑1 (MQ=255)
tCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAc < 1:1893732/71‑1 (MQ=255)
tCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAc < 1:4106502/71‑1 (MQ=255)
tCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAc < 1:425482/71‑1 (MQ=255)
cGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:2824899/1‑71 (MQ=255)
cGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:3138044/1‑71 (MQ=255)
cGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:1176554/1‑71 (MQ=255)
tCTGCTGCCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCa > 1:131611/1‑70 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGGACCGCAGATGCGGTCAcc > 1:1774655/1‑64 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:1368491/1‑64 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:4077866/1‑64 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:3281753/1‑64 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:2389908/1‑64 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:1567870/1‑64 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCAcc > 1:156775/1‑64 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCaaaa < 1:625217/69‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCaaaa < 1:3602405/69‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:2958158/70‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:573778/70‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:1222953/70‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:2872119/70‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:3041993/70‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:1506966/70‑1 (MQ=255)
ctgcCAGCACAGCAGAGAATGAAA‑GGA‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:2607929/68‑1 (MQ=255)
agcacagcaGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGa > 1:2940584/1‑70 (MQ=255)
cacagcaGAGAATGAAAGGGG‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACAtt < 1:2351778/71‑1 (MQ=255)
cacagcaGAGAATGAAAGGGG‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACAtt < 1:3151213/71‑1 (MQ=255)
acagcaGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACAt > 1:274580/1‑70 (MQ=255)
acagcaGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACAt > 1:1941999/1‑70 (MQ=255)
acagcaGAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACAt > 1:255746/1‑70 (MQ=255)
cagcagAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTa > 1:2899812/1‑71 (MQ=255)
cagcagAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTa > 1:2762389/1‑71 (MQ=255)
cagaagAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACAt > 1:3706764/1‑69 (MQ=255)
agcagAGAATGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCa < 1:3318096/52‑1 (MQ=38)
actGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTc < 1:44312/54‑1 (MQ=38)
aaTGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTc < 1:157455/56‑1 (MQ=39)
aaTGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTc < 1:1838947/56‑1 (MQ=39)
aaTGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGt > 1:1296444/1‑71 (MQ=255)
aaTGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGt > 1:3283671/1‑71 (MQ=255)
aaTGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGt > 1:1366670/1‑71 (MQ=255)
aaTGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGt > 1:705285/1‑71 (MQ=255)
aaTGAAAGGGGAAAAACTGGTATCGCGGAACCGCAGATGCGGTCACACAAAACCTCGACATTATCCGCCGt > 1:2391568/1‑71 (MQ=255)
aTGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTc < 1:3880645/55‑1 (MQ=39)
tGAAAGGGGAAAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAAc < 1:3830877/51‑1 (MQ=38)
agggga‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGTtata > 1:78307/3‑69 (MQ=255)
ggga‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTGTCCGCCGTTATAAAGc < 1:1965690/71‑1 (MQ=255)
ggga‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGTTATAAAGc < 1:2600499/71‑1 (MQ=255)
|
ATGAAGAAATGAACGAGTTTGTCGATCTGCTGCCAGCACAGCAGAGAATGAAAGGGG‑AAAACTGGTATCGCGGCACCGCAGATGCGGTCACCCAAAACCTCGACATTATCCGCCGTTATAAAGC > W3110S.gb/4071363‑4071486
|
| 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
