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 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,639,730 |
T→C |
6.7% |
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 | 6.7%
| 203.8
/ 6.3
| 74 | K222R (AAA→AGA) | xerC | site‑specific tyrosine recombinase |
| Reads supporting (aligned to +/- strand): ref base T (34/35); new base C (2/3); total (36/38) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.32e-01 |
GAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTA > W3110S.gb/3639661‑3639795
|
gAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt < 1:981759/71‑1 (MQ=255)
gAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt > 1:1509841/1‑71 (MQ=255)
tGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTg > 1:23952/1‑71 (MQ=255)
gACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt < 1:3419889/67‑1 (MQ=255)
gACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTg > 1:3591317/1‑70 (MQ=255)
aCGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGca > 1:3165646/1‑71 (MQ=255)
aCGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGc < 1:1108589/70‑1 (MQ=255)
cGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGcac < 1:1791419/71‑1 (MQ=255)
gTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCt > 1:2196831/1‑66 (MQ=255)
gTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGcaca > 1:1936386/1‑71 (MQ=255)
gTAATTTATGCGGATGAACGTGATTATTCAGCACTTGTTTTATGCCCCATTCGGCAAAGCGTTTCt > 1:1024315/1‑66 (MQ=255)
tAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACAt < 1:1864357/71‑1 (MQ=255)
aaTTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGc > 1:2526644/1‑66 (MQ=255)
aTTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACAtt < 1:2362615/70‑1 (MQ=255)
aTTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACAtt < 1:3976190/70‑1 (MQ=255)
aTGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgc < 1:2915125/70‑1 (MQ=255)
tGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgc < 1:2091549/71‑1 (MQ=255)
tGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgc < 1:1669825/71‑1 (MQ=255)
ggATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgcg < 1:1307645/69‑1 (MQ=255)
gATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgcg > 1:3824723/1‑68 (MQ=255)
gATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgag < 1:4326147/71‑1 (MQ=255)
aTGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGcaca < 1:3911018/58‑1 (MQ=255)
aTGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgaga < 1:755931/71‑1 (MQ=255)
aTGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTAcgcgcg > 1:2204287/1‑67 (MQ=255)
gAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGcac > 1:3944171/1‑55 (MQ=255)
gAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACAtt > 1:600488/1‑58 (MQ=255)
cGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGc < 1:2435203/71‑1 (MQ=255)
cGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGc > 1:3866998/1‑71 (MQ=255)
tGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCtt < 1:429678/71‑1 (MQ=255)
gATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTg > 1:932595/1‑71 (MQ=255)
ttattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGcc > 1:3903523/1‑71 (MQ=255)
attCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGcc > 1:2999960/1‑69 (MQ=255)
cAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGccc < 1:1138333/67‑1 (MQ=255)
aGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTa > 1:3092371/1‑45 (MQ=255)
aGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGtt < 1:4606657/70‑1 (MQ=255)
aGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGtt < 1:4018130/70‑1 (MQ=255)
gCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTg < 1:2924519/37‑1 (MQ=255)
gCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTc < 1:1608436/71‑1 (MQ=255)
cccTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTTCACATTACGCGCGGAGATACGCTTGccc < 1:242187/64‑1 (MQ=255)
cccTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCg < 1:4569797/71‑1 (MQ=255)
tGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGa > 1:4265120/1‑68 (MQ=255)
tGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGa > 1:3710152/1‑68 (MQ=255)
tGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGga < 1:430919/47‑1 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTTTCTGcaca > 1:1885166/1‑35 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCTGAGATACGCTTGCCCAGTTTCGACAg < 1:3125695/70‑1 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAg < 1:1145920/70‑1 (MQ=255)
ttttATGCCCCATTCGGCAAAGCGTTTCTGCACAtt < 1:4579432/36‑1 (MQ=255)
ttttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTg < 1:3403042/55‑1 (MQ=255)
tttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaa < 1:491162/70‑1 (MQ=255)
ttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGc > 1:2180563/1‑50 (MQ=255)
tATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaa < 1:513036/70‑1 (MQ=255)
aTGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGga > 1:2578392/1‑41 (MQ=255)
aTGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaaa < 1:2578621/70‑1 (MQ=255)
tGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaaa < 1:3494814/69‑1 (MQ=255)
tGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaa > 1:696440/1‑68 (MQ=255)
gCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAgcg > 1:3844155/1‑71 (MQ=255)
ccccATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAgcgc > 1:3581873/1‑71 (MQ=255)
cccATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGcgcg < 1:2113388/71‑1 (MQ=255)
cccATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGcgcg < 1:3408014/71‑1 (MQ=255)
ccATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgt > 1:370509/1‑71 (MQ=255)
ccATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgt > 1:2690617/1‑71 (MQ=255)
cATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGa > 1:3268347/1‑56 (MQ=255)
cATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtc > 1:2107393/1‑71 (MQ=255)
cATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtc > 1:290306/1‑71 (MQ=255)
aTTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcg < 1:2546202/71‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcgt > 1:410311/1‑71 (MQ=255)
tCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcgt > 1:1231468/1‑70 (MQ=255)
tCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCgtcgtc > 1:3320927/1‑71 (MQ=255)
ggCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt < 1:2302631/70‑1 (MQ=255)
ggCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt < 1:2302568/70‑1 (MQ=255)
ggCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt < 1:2102521/70‑1 (MQ=255)
ggCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCACAGTTTCGACAGAAAAAGCGCGTCGTCtt > 1:1613422/1‑71 (MQ=255)
aaaGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCg > 1:3011758/1‑70 (MQ=255)
aaaGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGc < 1:2056293/71‑1 (MQ=255)
aaGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCt < 1:4329877/71‑1 (MQ=255)
aGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTa > 1:902410/1‑71 (MQ=255)
gCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcgt > 1:823274/1‑62 (MQ=255)
|
GAGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTA > W3110S.gb/3639661‑3639795
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
