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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,990,234 |
A→G |
70.5% |
L76L (TTA→TTG) |
mutY → |
adenine DNA glycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,990,234 | 0 | A | G | 70.5%
| 57.2
/ 27.8
| 44 | L76L (TTA→TTG) | mutY | adenine DNA glycosylase |
| Reads supporting (aligned to +/- strand): ref base A (8/5); new base G (13/18); total (21/23) |
| Fisher's exact test for biased strand distribution p-value = 3.25e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTTTATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGACCTTA > minE/1990167‑1990303
|
gCTTTATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTgg < 1:3250390/71‑1 (MQ=255)
gCTTTATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTgg < 1:506624/71‑1 (MQ=255)
tGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCgg < 1:1121892/70‑1 (MQ=255)
tGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCgg < 1:1853017/70‑1 (MQ=255)
gcTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGc < 1:2316699/71‑1 (MQ=255)
cTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCt < 1:80387/71‑1 (MQ=255)
cTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCt < 1:4917634/71‑1 (MQ=255)
tCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTa > 1:5110098/1‑70 (MQ=255)
cccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTAt < 1:2926930/70‑1 (MQ=255)
ccGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGa > 1:1016617/1‑55 (MQ=255)
gACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACg > 1:4917724/1‑71 (MQ=255)
ggTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGccc > 1:5493151/1‑71 (MQ=255)
gTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTtgtg > 1:2470683/1‑47 (MQ=255)
tGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCcgc < 1:104304/71‑1 (MQ=255)
tGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTAt < 1:1726608/62‑1 (MQ=255)
gACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCcgcg > 1:4425030/1‑71 (MQ=255)
aCCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCcgcgc > 1:198280/1‑71 (MQ=255)
tctcGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCgcgcgcgc > 1:3293503/1‑70 (MQ=255)
ctcGCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCaa > 1:1715202/1‑71 (MQ=255)
gCCAATGCGCCGCTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCa < 1:4852843/67‑1 (MQ=255)
gCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCt < 1:5208161/71‑1 (MQ=255)
gCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCt > 1:414096/1‑71 (MQ=255)
aTGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCa > 1:2629534/1‑70 (MQ=255)
cgccgcTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATaa < 1:2919316/70‑1 (MQ=255)
cgccgcTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATaa < 1:4252385/70‑1 (MQ=255)
gccgcTCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTAt < 1:941847/43‑1 (MQ=255)
cgcTCGACGAAGTTCTCCACTTGTGGACCGGGCTTg < 1:363272/36‑1 (MQ=255)
cgcTCGACGAAGTTCTCCACTTGTGGACCGGGCTTg < 1:3468342/36‑1 (MQ=255)
cgcTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCg > 1:2549173/1‑71 (MQ=255)
tCGACGAAGTTCTCCACTTGTGGACCGGGCTTGGCTATTa > 1:244156/1‑40 (MQ=255)
cgacgaAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGccc > 1:5244287/1‑44 (MQ=255)
gaAGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCacaaca < 1:3661540/71‑1 (MQ=255)
gaAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGccc > 1:1412877/1‑40 (MQ=255)
gaAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCcg > 1:3528880/1‑41 (MQ=255)
gaAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCcg > 1:2628010/1‑41 (MQ=255)
aaGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCacaac > 1:4749677/1‑69 (MQ=255)
aGTTCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAg < 1:2155732/71‑1 (MQ=255)
gTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGt < 1:1103200/71‑1 (MQ=255)
ttCTCCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTg < 1:4189981/71‑1 (MQ=255)
ctcCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGc > 1:476069/1‑71 (MQ=255)
ctcCACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGc > 1:5511793/1‑71 (MQ=255)
ctcCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCacaac < 1:5696520/64‑1 (MQ=255)
ccACTTGTGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGa > 1:3146200/1‑71 (MQ=255)
cACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGc < 1:4405362/68‑1 (MQ=255)
tATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGACCTTa > 1:1374745/1‑71 (MQ=255)
|
GCTTTATGGCGCGCTTCCCGACGGTGACCGATCTCGCCAATGCGCCGCTCGACGAAGTTCTCCACTTATGGACCGGGCTTGGCTATTACGCCCGCGCGCGCAATCTGCATAAAGCGGCACAACAAGTGGCGACCTTA > minE/1990167‑1990303
|
| 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
