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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,885,984 |
C→T |
75.0% |
intergenic (‑109/+250) |
ygcB ← / ← cysH |
conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,885,984 | 0 | C | T | 75.0%
| 121.1
/ 42.5
| 68 | intergenic (‑109/+250) | ygcB/cysH | conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
| Reads supporting (aligned to +/- strand): ref base C (7/10); new base T (20/31); total (27/41) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGGCTATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCC > W3110S.gb/2885918‑2886051
|
gggCTATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAaag < 1:557246/71‑1 (MQ=255)
tATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAaagaa > 1:1792885/1‑69 (MQ=255)
tATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAaagaa > 1:3038587/1‑69 (MQ=255)
tATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAaagaa > 1:3030359/1‑69 (MQ=255)
tATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAaag < 1:2623572/67‑1 (MQ=255)
tATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAaag < 1:1399358/67‑1 (MQ=255)
tATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAaag < 1:2682088/67‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:90202/69‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:178427/69‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:1675540/69‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:1528495/69‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:3082496/69‑1 (MQ=255)
ttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:3500831/1‑71 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAgaga > 1:288236/1‑69 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAgaga > 1:3421998/1‑69 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAgaga > 1:1143549/1‑69 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAgaga > 1:2263479/1‑69 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGAc > 1:282455/1‑70 (MQ=255)
ttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt > 1:3278749/1‑70 (MQ=255)
ttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt > 1:3274445/1‑70 (MQ=255)
ttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt > 1:1435604/1‑70 (MQ=255)
ttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt > 1:520186/1‑70 (MQ=255)
ttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt > 1:2523487/1‑70 (MQ=255)
ttCGATGATGCTCATAAATATCGAATTACAGTGATATACACATGTATTGCCTCCCTGTAAAGAAGAGACt < 1:791748/70‑1 (MQ=255)
gctgctCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTc > 1:963649/1‑71 (MQ=255)
gctgctCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTc > 1:369568/1‑71 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGt < 1:267302/71‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTg < 1:135191/70‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTg < 1:3652317/70‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTg < 1:1562826/70‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTg < 1:2958557/70‑1 (MQ=255)
aTAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTg < 1:2331466/70‑1 (MQ=255)
tatCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTggg < 1:1008363/71‑1 (MQ=255)
tCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTggg < 1:2484186/69‑1 (MQ=255)
tCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTggg < 1:382434/69‑1 (MQ=255)
tCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTggg < 1:421623/69‑1 (MQ=255)
ttACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt < 1:186835/45‑1 (MQ=255)
ttACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt < 1:2449449/45‑1 (MQ=255)
ttACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACt < 1:3454372/45‑1 (MQ=255)
aCAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTaa > 1:1356269/1‑45 (MQ=255)
aCAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTaa > 1:1417332/1‑45 (MQ=255)
aCAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTaa > 1:3127122/1‑45 (MQ=255)
aCAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACg < 1:3639024/70‑1 (MQ=255)
aCAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACg < 1:931901/70‑1 (MQ=255)
aCAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGc > 1:2475800/1‑71 (MQ=255)
gATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTg < 1:2886130/51‑1 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCg < 1:3382354/57‑1 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCg < 1:1192199/57‑1 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCg < 1:2222446/57‑1 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCg < 1:2314480/57‑1 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCg < 1:1712088/57‑1 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg > 1:1986743/1‑71 (MQ=255)
taCACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAg > 1:2200779/1‑71 (MQ=255)
cacaTGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:551332/1‑45 (MQ=255)
tGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGa < 1:2048215/52‑1 (MQ=255)
tGTCCTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGa < 1:3576247/52‑1 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGaa < 1:2557891/36‑1 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGaa < 1:2263004/36‑1 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGaa < 1:1941030/36‑1 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGa > 1:3264576/1‑68 (MQ=255)
tCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGa > 1:1926121/1‑68 (MQ=255)
ttGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa > 1:426919/1‑70 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGaaa > 1:3065051/1‑70 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:288769/68‑1 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:1715416/68‑1 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGa < 1:59024/68‑1 (MQ=255)
gCCTCCCTACAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGaaa < 1:628792/70‑1 (MQ=255)
cTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGcc < 1:2256509/71‑1 (MQ=255)
|
GGGCTATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCC > W3110S.gb/2885918‑2886051
|
| 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
