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 |
2,220,243 |
T→C |
28.8% |
intergenic (+503/‑475) |
yhdH → / → accB |
predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding/acetyl CoA carboxylase, BCCP subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,220,243 | 0 | T | C | 28.8%
| 87.1
/ 38.6
| 59 | intergenic (+503/‑475) | yhdH/accB | predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding/acetyl CoA carboxylase, BCCP subunit |
| Reads supporting (aligned to +/- strand): ref base T (20/22); new base C (4/13); total (24/35) |
| Fisher's exact test for biased strand distribution p-value = 1.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCCGTCGATG > minE/2220174‑2220312
|
gTAATGTCGTCTCTCTTGTCGCGATCCTGGCATCCCTACATTATTTGTTGTCTGTGAAGATTATCTCATTg < 1:1870458/71‑1 (MQ=255)
gTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTg < 1:3085671/71‑1 (MQ=255)
aaTGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTg > 1:917296/1‑69 (MQ=255)
tcgtcTATCTTGTCGCGATTCTGGCCCCAATACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGccg > 1:2110651/1‑70 (MQ=255)
tcgtcTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGccc > 1:3997921/1‑71 (MQ=255)
tcTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTc < 1:4592050/71‑1 (MQ=255)
tATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCCCAt > 1:5414755/1‑71 (MQ=255)
tCTTGTCGCGATTCTGGCCCCAATACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTCATc < 1:3981274/70‑1 (MQ=255)
tGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGccc > 1:4032344/1‑61 (MQ=255)
tGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGccc > 1:5464369/1‑61 (MQ=255)
gTCGCGATTCTGGCCCCAATACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTCATCt < 1:465123/67‑1 (MQ=255)
gTCGCGATTCTGGCCCCAATACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTCATCTACGc > 1:1666235/1‑71 (MQ=255)
gTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCtt < 1:483433/68‑1 (MQ=255)
gTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCg < 1:876015/70‑1 (MQ=255)
tCGCGATTCTGGCCCCAATACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTCATCTACGct > 1:610291/1‑70 (MQ=255)
tCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGc < 1:5574589/70‑1 (MQ=255)
gcgATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAg < 1:2060615/70‑1 (MQ=255)
cgATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTc < 1:2089726/59‑1 (MQ=255)
cgATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTc < 1:3938216/59‑1 (MQ=255)
cgATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTc < 1:3710448/59‑1 (MQ=255)
aTCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGggct < 1:5189383/71‑1 (MQ=255)
ggCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAg < 1:2581014/62‑1 (MQ=255)
ggCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGggctggcgt > 1:61763/1‑69 (MQ=255)
ggCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgctt > 1:4919699/1‑71 (MQ=255)
ggCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgctt > 1:68418/1‑71 (MQ=255)
gCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGggctggct < 1:3455878/69‑1 (MQ=255)
gCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGggctggct < 1:84931/69‑1 (MQ=255)
aTCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgctttt > 1:4336204/1‑70 (MQ=255)
ccTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagc > 1:873650/1‑71 (MQ=255)
tACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGccg < 1:905693/41‑2 (MQ=16)
tACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGccg < 1:5139796/41‑2 (MQ=16)
tACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGccg < 1:5179624/41‑2 (MQ=16)
tACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTc < 1:685174/44‑1 (MQ=16)
tACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTc < 1:2956533/44‑1 (MQ=16)
tACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTc < 1:5512540/44‑1 (MQ=16)
cATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctttt > 1:4523401/1‑71 (MQ=255)
cATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctttt > 1:4123580/1‑71 (MQ=255)
cATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctttt > 1:4992352/1‑71 (MQ=255)
cATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctt < 1:1391394/69‑1 (MQ=255)
cATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctt < 1:5504834/69‑1 (MQ=255)
cATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTCATCTACGCTGGGCTGgctgtactgctttt < 1:3746792/71‑1 (MQ=255)
attattTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagcttttc < 1:4611400/71‑1 (MQ=255)
attattTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagcttttc < 1:2441561/71‑1 (MQ=255)
attattTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctt < 1:4298870/68‑1 (MQ=255)
ttatcTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTCATCtac < 1:3175017/46‑3 (MQ=16)
attTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCa > 1:2353023/1‑47 (MQ=255)
attTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCAcc > 1:606583/1‑71 (MQ=255)
gtgGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTAc > 1:1561470/1‑71 (MQ=255)
gtgGTCTGTGAAGATTATCCCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTAc > 1:2110177/1‑71 (MQ=255)
gtgGTCCGTGAAGATTATTTCACCGCAGCCGCTCATCTACGCTGGGCTGgctgtactgctt > 1:1615761/1‑61 (MQ=255)
tccgtgAAGATTATTTCACCGCAGCCGCTCATCTACGCTGGGCTGGCTGTACTGCTTTTAGCCTTACGGta < 1:714237/68‑1 (MQ=255)
tgtgAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTtat > 1:3065471/1‑70 (MQ=255)
tgAAGATTATTTCACCGCAGCCGCTCATCTACGCTGGGCTGGCTGTACTGCTTTTAGCCTTa < 1:364042/62‑1 (MQ=255)
tgAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATaag < 1:3122521/71‑1 (MQ=255)
gATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGt < 1:1220387/71‑1 (MQ=255)
attattTCACCGCAGCCGCTCATCTACGCTGGGCTGGCTGTACTGCTTTTAGCCTTACGGTATAAGAAGtt < 1:4528504/71‑1 (MQ=255)
cATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCCGTCga > 1:5112179/1‑71 (MQ=255)
cATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCCGTCga > 1:4380290/1‑71 (MQ=255)
aTTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCCGTc < 1:325707/68‑1 (MQ=255)
ttGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCCGTCgatg < 1:4180556/71‑1 (MQ=255)
|
GTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCCGTCGATG > minE/2220174‑2220312
|
| 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
