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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,759,336 |
C→T |
92.0% |
T45I (ACA→ATA) |
yfjJ → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,759,336 | 0 | C | T | 92.0%
| 282.2
/ 12.3
| 100 | T45I (ACA→ATA) | yfjJ | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (5/3); new base T (50/42); total (55/45) |
| Fisher's exact test for biased strand distribution p-value = 7.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATGACTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAC > W3110S.gb/2759270‑2759399
|
atgaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaa < 1:103305/71‑1 (MQ=255)
atgaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaa < 1:934775/71‑1 (MQ=255)
atgaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaa < 1:1203267/71‑1 (MQ=255)
atgaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaa < 1:1733580/71‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:1772475/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:2865886/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:3073502/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:1357615/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:3659478/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:1999097/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:1990263/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:819478/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:959738/70‑1 (MQ=255)
cTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAata < 1:253349/71‑1 (MQ=255)
ccTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGaaaa > 1:2263309/1‑66 (MQ=255)
ccTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATg > 1:518566/1‑70 (MQ=255)
ccTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATg > 1:2580776/1‑70 (MQ=255)
ccTAAACCAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATg > 1:1479119/1‑70 (MQ=255)
aaCGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGa < 1:1979846/68‑1 (MQ=255)
aaCGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGa < 1:2112976/68‑1 (MQ=255)
aaCGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGa < 1:1428278/68‑1 (MQ=255)
aaCGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGa < 1:1356801/68‑1 (MQ=255)
aCATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCAt < 1:3692319/71‑1 (MQ=255)
tCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAAcc < 1:3585723/65‑1 (MQ=255)
tCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAAcc < 1:415828/65‑1 (MQ=255)
tCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAAcc < 1:979485/65‑1 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCa > 1:2885514/1‑65 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:289139/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:2550173/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:2314033/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:746424/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:1805192/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:1831859/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:3400136/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:821093/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:399528/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCttt > 1:1511301/1‑71 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCtt > 1:1262834/1‑70 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCtt > 1:2883610/1‑70 (MQ=255)
ttAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCtt > 1:1871708/1‑70 (MQ=255)
aaCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTc > 1:2705621/1‑70 (MQ=255)
aaCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTc > 1:1246400/1‑70 (MQ=255)
aCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:1568853/70‑1 (MQ=255)
aCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:3715850/70‑1 (MQ=255)
aCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:308445/70‑1 (MQ=255)
aCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:1672175/70‑1 (MQ=255)
aCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:759492/70‑1 (MQ=255)
cTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAata > 1:1895260/1‑50 (MQ=255)
cTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAata > 1:1277310/1‑50 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:3132311/1‑41 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:3684310/41‑1 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:3664420/1‑41 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:1022218/41‑1 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:393566/41‑1 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa < 1:524438/41‑1 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:913366/1‑41 (MQ=255)
aTTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:282408/1‑41 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGtt < 1:576560/71‑1 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGtt < 1:3467420/71‑1 (MQ=255)
tCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATg < 1:3211492/43‑1 (MQ=255)
tCTAAGTGTTGATCTGCATGACCCAATTGATATAGAAAATATg < 1:3597025/43‑1 (MQ=255)
tACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGa > 1:3353360/1‑43 (MQ=255)
aCGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:3242454/57‑1 (MQ=255)
gtgtTGATCTGCATGACCCAATTGATATAGAAAATATg < 1:2630276/38‑1 (MQ=255)
gtgtTGATCTGCATGACCCAATTGATATAGAAAATATg < 1:592041/38‑1 (MQ=255)
gtTGATCTGCATGACCCAATTGATATAGAAAATATg < 1:1824811/36‑1 (MQ=255)
ttGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGt > 1:2016271/1‑71 (MQ=255)
gATCTGCATGACCCAATTGATATAGAAAATATGGATAAc > 1:1811853/1‑39 (MQ=255)
gATCTGCATGACCCAATTGATATAGAAAATATGGATAAc > 1:941276/1‑39 (MQ=255)
gATCTGCATGACCCAATTGATATAGAAAATATGGATAAc > 1:3265599/1‑39 (MQ=255)
gATCTGCATGACCCAATTGATATAGAAAATATGGATAAc > 1:3191136/1‑39 (MQ=255)
gATCTGCATGACCCAATTGATATAGAAAATATGGATAAc > 1:1464071/1‑39 (MQ=255)
gATCTGCATGACCCAATTGATATAGAAAATATGGATAAc > 1:383744/1‑39 (MQ=255)
gATCTGAATGACCCAATTGATATAGAAAATATGGATAAc > 1:3195442/1‑39 (MQ=38)
aTCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGc < 1:2590707/70‑1 (MQ=255)
aCCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAg > 1:1618786/1‑46 (MQ=255)
aCCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAg > 1:1834947/1‑46 (MQ=255)
aCCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAg > 1:958974/1‑46 (MQ=255)
aCCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAg > 1:253033/1‑46 (MQ=255)
aCCCAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAg > 1:3563769/1‑46 (MQ=255)
cAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCttt < 1:1378535/71‑1 (MQ=255)
cAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCttt < 1:1998824/71‑1 (MQ=255)
cAATTGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCttt < 1:1233053/71‑1 (MQ=255)
cAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCttt < 1:1069767/71‑1 (MQ=255)
aTTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTa < 1:1171546/70‑1 (MQ=255)
aTTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAc > 1:541081/1‑71 (MQ=255)
aTTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAc > 1:1887283/1‑71 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGtt > 1:3579828/1‑43 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCt > 1:2854807/1‑65 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCt > 1:3164961/1‑65 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCt > 1:282275/1‑65 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCt > 1:790511/1‑65 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTa > 1:1965909/1‑68 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAc > 1:1627116/1‑69 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAc > 1:1877809/1‑69 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAc > 1:1245989/1‑69 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAc > 1:458820/1‑69 (MQ=255)
tGATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAc > 1:271466/1‑69 (MQ=255)
tGATATAGAAAATATGGATAACCCATTATTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCt > 1:2771093/1‑65 (MQ=255)
gATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCg > 1:2542677/1‑62 (MQ=255)
|
ATGACTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTAC > W3110S.gb/2759270‑2759399
|
| 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
