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 F17 I0 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,639,730 |
T→C |
10.6% |
K222R (AAA→AGA) |
xerC ← |
site‑specific tyrosine recombinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,639,730 | 0 | T | C | 10.6%
| 171.1
/ 11.7
| 66 | K222R (AAA→AGA) | xerC | site‑specific tyrosine recombinase |
| Reads supporting (aligned to +/- strand): ref base T (28/31); new base C (4/3); total (32/34) |
| Fisher's exact test for biased strand distribution p-value = 7.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTACCA > W3110S.gb/3639660‑3639798
|
cGAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGtt < 1:1601252/71‑1 (MQ=255)
cGAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGtt > 1:2048812/1‑71 (MQ=255)
gAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt < 1:988673/71‑1 (MQ=255)
gAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt < 1:2071013/71‑1 (MQ=255)
aGTGACGTAATTTATGAGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTc < 1:279887/71‑1 (MQ=255)
gTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCt > 1:2844512/1‑71 (MQ=255)
tGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTg > 1:1594197/1‑71 (MQ=255)
aCGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGca > 1:1987175/1‑71 (MQ=255)
aCGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGca > 1:4142793/1‑71 (MQ=255)
gTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGcaca > 1:19870/1‑71 (MQ=255)
cGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgcg < 1:767229/70‑1 (MQ=255)
cGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgcg < 1:2194307/70‑1 (MQ=255)
cGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTAcgcgcg < 1:2088540/70‑1 (MQ=255)
ggATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGga < 1:3304459/71‑1 (MQ=255)
gATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgag < 1:3238763/71‑1 (MQ=255)
gATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgag < 1:1127600/71‑1 (MQ=255)
tGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgaga > 1:3822456/1‑70 (MQ=255)
aaCGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATAc > 1:1401723/1‑71 (MQ=255)
aCGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACAtt > 1:804923/1‑56 (MQ=255)
cGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGc < 1:3773521/71‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgc < 1:2099829/60‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgc < 1:4237074/60‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCt < 1:4100942/71‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCt < 1:3828569/71‑1 (MQ=255)
gATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTg > 1:3027935/1‑71 (MQ=255)
attattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGtt < 1:2954809/41‑1 (MQ=255)
attattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGtt < 1:2819549/41‑1 (MQ=255)
attattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGc < 1:3276968/71‑1 (MQ=255)
ttattaAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGcc > 1:1836417/1‑71 (MQ=255)
ttattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTc < 1:1873199/42‑1 (MQ=255)
attCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGga > 1:297447/1‑57 (MQ=255)
attCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGc < 1:349157/64‑1 (MQ=255)
tCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgc < 1:4106970/52‑1 (MQ=255)
tCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGc < 1:1120880/62‑1 (MQ=255)
tCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCt < 1:3268873/63‑1 (MQ=255)
cAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTa > 1:4016263/1‑46 (MQ=255)
cAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGtt > 1:3728810/1‑71 (MQ=255)
cagccTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGttt > 1:1758278/4‑71 (MQ=255)
aGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgaga < 1:916748/55‑1 (MQ=255)
aGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATAc > 1:190319/1‑58 (MQ=255)
gCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTc < 1:12241/71‑1 (MQ=255)
cccTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCg < 1:3583909/71‑1 (MQ=255)
ccTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgaga < 1:4092035/52‑1 (MQ=255)
cTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACg > 1:3863714/1‑55 (MQ=255)
cTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGa > 1:1020706/1‑70 (MQ=255)
ttGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAc < 1:2975579/41‑1 (MQ=255)
tGTTTTATGCCCCATTCGGCAAAGAGTTTCTGCACATTAcgcgcg > 1:934447/1‑45 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcg > 1:3348034/1‑40 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATa > 1:1693968/1‑50 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACa < 1:3311935/69‑1 (MQ=255)
tttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaa > 1:881009/1‑70 (MQ=255)
ttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCa > 1:2093842/1‑57 (MQ=255)
ttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGa > 1:2551833/1‑64 (MQ=255)
aTGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgaga < 1:2909961/43‑1 (MQ=255)
aTGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaaa < 1:1102562/70‑1 (MQ=255)
ccATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAgcgc > 1:1317240/1‑69 (MQ=255)
cATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtc < 1:4099446/71‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGgaga < 1:3596202/35‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcgt > 1:3676668/1‑71 (MQ=255)
cGGCAAAGCGTTTCTGTACATTACGCGCGGAGATACGCATGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt > 1:1392189/1‑71 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCgtcgtc < 1:1710886/70‑1 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt > 1:3905818/1‑71 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt > 1:3623330/1‑71 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt > 1:863541/1‑71 (MQ=255)
cGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAgcg > 1:961794/1‑63 (MQ=255)
ggCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGGCt < 1:2608646/70‑1 (MQ=255)
ggCAAAGCGTTTCAGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtc < 1:3886799/66‑1 (MQ=255)
aaaGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGc > 1:460071/1‑71 (MQ=255)
aaaGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGc < 1:4280940/71‑1 (MQ=255)
aaaGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGc > 1:2885359/1‑71 (MQ=255)
aaGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCt < 1:3169891/71‑1 (MQ=255)
gTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTACCa < 1:3668421/71‑1 (MQ=255)
|
CGAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTACCA > W3110S.gb/3639660‑3639798
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
