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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,219,258 |
T→C |
18.9% |
F379S (TTC→TCC) |
ygjG → |
putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,219,258 | 0 | T | C | 18.9%
| 115.8
/ 22.5
| 53 | F379S (TTC→TCC) | ygjG | putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base T (24/19); new base C (2/8); total (26/27) |
| Fisher's exact test for biased strand distribution p-value = 7.64e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.24e-01 |
AATGTGTTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGTT > W3110S.gb/3219191‑3219318
|
aaTGTGTTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGttt > 1:2849511/1‑68 (MQ=255)
aaTGTGTTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTc > 1:92978/1‑69 (MQ=255)
aaTGTGTTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTc > 1:889797/1‑69 (MQ=255)
tgtgTTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTc > 1:1971379/1‑67 (MQ=255)
tgtgTTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTc > 1:3514414/1‑67 (MQ=255)
tgtTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGt > 1:1871086/1‑68 (MQ=255)
tgtTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTc < 1:894198/69‑1 (MQ=255)
tgtTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTc > 1:1423665/1‑69 (MQ=255)
tgtTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTc < 1:2857468/69‑1 (MQ=255)
ttGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCa < 1:211573/68‑1 (MQ=255)
aaCTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGaa < 1:306570/69‑1 (MQ=255)
aaCTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTCCCGTCAACTGGCGCggg < 1:2574450/67‑1 (MQ=255)
aCTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAat > 1:1273251/1‑69 (MQ=255)
cTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGa > 1:2447013/1‑66 (MQ=255)
cTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTCCCGTCAACTGGCGCGGGAata < 1:2922288/69‑1 (MQ=255)
ttACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAatat < 1:438150/69‑1 (MQ=255)
ttACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAatat < 1:2369992/69‑1 (MQ=255)
ttACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTCCCGTCAACTGGCGCGGGAata < 1:1885707/68‑1 (MQ=255)
tACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATc > 1:2364897/1‑69 (MQ=255)
tACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATc > 1:3097024/1‑69 (MQ=255)
tACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATc > 1:894536/1‑69 (MQ=255)
tACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATc > 1:1165009/1‑69 (MQ=255)
aCCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATc > 1:188649/1‑68 (MQ=255)
ggCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGa > 1:986613/1‑69 (MQ=255)
ggCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGa > 1:2459702/1‑69 (MQ=255)
aGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATccc > 1:3243285/1‑62 (MQ=255)
gCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTCCCGTCAACTGGCGCGGGAATATCCCGATCTgg < 1:2863422/67‑1 (MQ=255)
tGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTAc > 1:1394615/1‑68 (MQ=255)
tGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATATGGTAc > 1:1401874/1‑68 (MQ=255)
aaaaaGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAg > 1:1400171/1‑69 (MQ=255)
aGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGcgcg < 1:689120/69‑1 (MQ=255)
aGGCGATATGTTGCTGGACGGTTCCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGcgcg > 1:2349823/1‑69 (MQ=255)
aGGCGATATGTTGCTGGACGGTTCCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGcgcg > 1:167306/1‑69 (MQ=255)
atatGTTGCTGGACGGTTCCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTa < 1:1786750/69‑1 (MQ=255)
atatGTTGCTGGACGGTTCCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTa < 1:1254240/69‑1 (MQ=255)
ttGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAggg > 1:779735/1‑69 (MQ=255)
ttGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAggg > 1:437106/1‑69 (MQ=255)
ttGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAggg > 1:1459855/1‑69 (MQ=255)
ttGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAggg > 1:3103282/1‑69 (MQ=255)
ttGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAggg > 1:3443072/1‑69 (MQ=255)
gCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGa < 1:3423210/68‑1 (MQ=255)
ggACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:56458/69‑1 (MQ=255)
ggACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:1458015/69‑1 (MQ=255)
ggACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:1871242/69‑1 (MQ=255)
ggACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:152877/69‑1 (MQ=255)
ggACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:1688146/69‑1 (MQ=255)
ggACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:2828735/69‑1 (MQ=255)
ggACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:2782833/69‑1 (MQ=255)
ggACGGTTCCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:1014457/69‑1 (MQ=255)
ggACGGTTCCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:1018632/69‑1 (MQ=255)
cGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:3082800/66‑1 (MQ=255)
cGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:2492452/66‑1 (MQ=255)
cGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:1391366/66‑1 (MQ=255)
ggTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGtt < 1:1489365/65‑1 (MQ=255)
ttCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTa < 1:2924698/52‑1 (MQ=255)
|
AATGTGTTGCTGGAGCAGAACTTACCGGCTCAGGCTGAGCAAAAAGGCGATATGTTGCTGGACGGTTTCCGTCAACTGGCGCGGGAATATCCCGATCTGGTACAGGAAGCGCGTGGTAAAGGGATGTT > W3110S.gb/3219191‑3219318
|
| 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
