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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,639,730 |
T→C |
35.7% |
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 | 35.7%
| 66.1
/ 73.4
| 70 | K222R (AAA→AGA) | xerC | site‑specific tyrosine recombinase |
| Reads supporting (aligned to +/- strand): ref base T (17/28); new base C (11/14); total (28/42) |
| Fisher's exact test for biased strand distribution p-value = 6.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.26e-01 |
AGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTA > W3110S.gb/3639662‑3639795
|
aGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGtctc < 1:862325/71‑1 (MQ=255)
tGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTg > 1:1824898/1‑71 (MQ=255)
gACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTg > 1:3446331/1‑70 (MQ=255)
aCGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGca > 1:860678/1‑71 (MQ=255)
aCGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGca > 1:4607190/1‑71 (MQ=255)
aCGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGca > 1:3940503/1‑71 (MQ=255)
atatATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTa > 1:2642485/4‑71 (MQ=255)
aTTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt > 1:4501243/1‑61 (MQ=255)
tttATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAc > 1:4276813/1‑71 (MQ=255)
tttATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAc > 1:4282446/1‑71 (MQ=255)
cGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGtctc < 1:4379241/55‑1 (MQ=255)
cGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTAcgcgcg < 1:4089609/70‑1 (MQ=255)
aTGAACGTTATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGgaga < 1:3170685/71‑1 (MQ=255)
aTGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACAt > 1:4931163/1‑59 (MQ=255)
aTGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGgaga < 1:3056689/71‑1 (MQ=255)
aTGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGgaga < 1:2469410/71‑1 (MQ=255)
aaCGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt > 1:1240561/1‑48 (MQ=255)
aaCGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt > 1:535208/1‑48 (MQ=255)
aaCGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGttt > 1:1842269/1‑48 (MQ=255)
aaCGTGATTATTCAGCCCTTGTTTTATGCCACATTCGGCAAAGCGTTTCTGCACATTAcg > 1:2918064/1‑60 (MQ=255)
cGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGc > 1:3205705/1‑71 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACAt < 1:2314979/53‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACAt < 1:4561696/53‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACAt < 1:4039090/53‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCt < 1:603982/71‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCt < 1:4061325/71‑1 (MQ=255)
gTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGAAAAGCGTCTCTGCACATTACGCGCGGAGATACGCt < 1:1459016/71‑1 (MQ=255)
tGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCtt < 1:4118472/71‑1 (MQ=255)
gATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGcaca > 1:560437/1‑50 (MQ=255)
attattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACAt < 1:1654517/50‑1 (MQ=255)
attattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACAt < 1:3943326/50‑1 (MQ=255)
ttattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTa < 1:2307490/51‑1 (MQ=255)
ttattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTa < 1:4278263/51‑1 (MQ=255)
ttattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTa < 1:4993854/51‑1 (MQ=255)
ttattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTa < 1:3502550/51‑1 (MQ=255)
ttattCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTa < 1:1242189/51‑1 (MQ=255)
attCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTctct > 1:3131971/1‑41 (MQ=255)
attCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTctct > 1:720799/1‑41 (MQ=255)
ttCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGAt < 1:1203060/59‑1 (MQ=255)
ttCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGAt < 1:4325503/59‑1 (MQ=255)
cTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGga < 1:525249/49‑1 (MQ=255)
cTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGgaga < 1:4270061/51‑1 (MQ=255)
cTTGTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGa > 1:3567515/1‑70 (MQ=255)
tGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGgaga > 1:3932372/1‑49 (MQ=255)
tGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGAGCGgaga > 1:1774728/1‑49 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAg < 1:4397031/70‑1 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGga > 1:913376/1‑46 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTc > 1:1749/1‑65 (MQ=255)
gTTTTATGCCCCATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTc > 1:591907/1‑65 (MQ=255)
ttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaa < 1:3207965/70‑1 (MQ=255)
ttATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaa < 1:1287199/70‑1 (MQ=255)
tATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaa < 1:273603/70‑1 (MQ=255)
tATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaa < 1:2603067/70‑1 (MQ=255)
tATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaa < 1:50710/70‑1 (MQ=255)
tATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGaaaa < 1:141895/70‑1 (MQ=255)
aTGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAg > 1:3692715/1‑71 (MQ=255)
ccccATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAgcg < 1:527303/70‑1 (MQ=255)
ccccATTCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAgcg < 1:1445720/70‑1 (MQ=255)
cccATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGcgcg < 1:3461454/71‑1 (MQ=255)
cATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtc > 1:2096923/1‑71 (MQ=255)
cATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtc > 1:2406119/1‑71 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGAt < 1:1860534/36‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGAt < 1:237147/36‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGAt < 1:2504801/36‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCg < 1:3267093/53‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAgcgc < 1:4860807/66‑1 (MQ=255)
ttCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcgt > 1:1557978/1‑71 (MQ=255)
ttCGGCAAAGCGTCTCTGCACATTACGCGCGGAGATAc < 1:2015541/38‑1 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCg < 1:3069417/51‑1 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcgt > 1:2599512/1‑69 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtcgt > 1:348638/1‑69 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt > 1:3593757/1‑71 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt > 1:1273151/1‑71 (MQ=255)
cGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt > 1:2493667/1‑71 (MQ=255)
cGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGc > 1:2221238/1‑38 (MQ=255)
cGGCAAAGCGTCTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCgtcgtc < 1:5111296/70‑1 (MQ=255)
ggCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCt < 1:1346177/70‑1 (MQ=255)
aGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTa < 1:2433105/71‑1 (MQ=255)
tttCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTc < 1:3000389/63‑1 (MQ=255)
ttCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGcgtc < 1:4550742/56‑1 (MQ=255)
|
AGTGACGTAATTTATGCGGATGAACGTGATTATTCAGCCCTTGTTTTATGCCCCATTCGGCAAAGCGTTTCTGCACATTACGCGCGGAGATACGCTTGCCCAGTTTCGACAGAAAAAGCGCGTCGTCTTCGCTA > W3110S.gb/3639662‑3639795
|
| 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
