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 |
1,014,611 |
A→G |
30.8% |
G486G (GGT→GGC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,014,611 | 0 | A | G | 30.8%
| 60.5
/ 37.4
| 52 | G486G (GGT→GGC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (15/21); new base G (8/8); total (23/29) |
| Fisher's exact test for biased strand distribution p-value = 7.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.52e-01 |
CCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTT > minE/1014543‑1014676
|
cccAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGaccacc > 1:5442996/1‑71 (MQ=255)
cccAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGaccacc > 1:1637925/1‑71 (MQ=255)
ccAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGaccacc < 1:1525995/70‑1 (MQ=255)
ttCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATAc < 1:607906/71‑1 (MQ=255)
ggATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGcc < 1:3217333/71‑1 (MQ=255)
ctcacaTTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg > 1:1360593/3‑70 (MQ=255)
aaCACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg < 1:4134195/70‑1 (MQ=255)
aaCACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg < 1:2641148/70‑1 (MQ=255)
aaCACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg < 1:2520645/70‑1 (MQ=255)
aaCACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg < 1:1980413/70‑1 (MQ=255)
tCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCaa > 1:5568517/1‑58 (MQ=255)
tCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAgccgcc > 1:924183/1‑71 (MQ=255)
aGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgtg < 1:3329862/71‑1 (MQ=255)
aGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgt < 1:2919898/70‑1 (MQ=255)
gCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAgccgcc < 1:1879519/66‑1 (MQ=255)
tctTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGa < 1:2680070/42‑1 (MQ=255)
ctTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGttttt > 1:4765620/1‑71 (MQ=255)
ttAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCa < 1:462459/48‑1 (MQ=255)
aaaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATa > 1:4431457/2‑41 (MQ=255)
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGAt > 1:5015040/1‑39 (MQ=255)
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATa > 1:1266360/1‑40 (MQ=255)
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATa > 1:4257964/1‑40 (MQ=255)
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGa > 1:1823041/1‑53 (MQ=255)
tACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAgg < 1:3616730/47‑1 (MQ=255)
ttCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg < 1:162245/47‑1 (MQ=255)
cccTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCa < 1:5435483/69‑1 (MQ=255)
cccTGCGCCAATACAGCGGCCGGACCACCGATACAGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCa < 1:3040774/69‑1 (MQ=255)
cTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGcgt < 1:2813926/68‑3 (MQ=255)
cTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTcgg > 1:5648506/1‑69 (MQ=255)
cTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTcg > 1:5141058/1‑69 (MQ=255)
cTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTc < 1:227697/69‑1 (MQ=255)
cTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCa > 1:5498553/1‑67 (MQ=255)
cTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCg < 1:406601/71‑1 (MQ=255)
cgcCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGtaa > 1:4676832/1‑69 (MQ=255)
cgcCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGta < 1:2331422/70‑2 (MQ=255)
cgcCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGta < 1:2271464/70‑2 (MQ=255)
cgcCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGt < 1:3096114/69‑1 (MQ=255)
cgcCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGt < 1:2188830/69‑1 (MQ=255)
cgcCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGt < 1:4717182/69‑1 (MQ=255)
cgcCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTc < 1:1776041/70‑1 (MQ=255)
cAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACct > 1:5625313/1‑71 (MQ=255)
cAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACct > 1:2937934/1‑71 (MQ=255)
agtACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACct > 1:3344664/3‑70 (MQ=255)
gtACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACctgc > 1:401206/2‑71 (MQ=255)
aTACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGccgccg > 1:3263390/1‑44 (MQ=255)
aTACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCAt < 1:5582778/60‑1 (MQ=255)
tACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATcc < 1:2153796/61‑1 (MQ=255)
tACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACctgct > 1:477448/1‑71 (MQ=255)
aCAGCGGCCGGACCACCGATACTGACAAGGTAGAAGCCGCCGTGTTTTTTAc > 1:2034702/1‑52 (MQ=255)
gccgCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTgctgact > 1:2804282/4‑71 (MQ=255)
ccgCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTgctgactg > 1:1923016/3‑71 (MQ=255)
ggCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTAc < 1:3324028/47‑1 (MQ=255)
ccGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCgg > 1:1332908/1‑71 (MQ=255)
ggACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGtt < 1:3406118/71‑1 (MQ=255)
ggACCACCGATACTGCCAAGGTAGAAGCCGCCGTGttttt < 1:2221431/40‑1 (MQ=255)
caccGATACTGCCAAGGTAGAAGCCGCCGTGttttt < 1:5541609/36‑1 (MQ=255)
accGATACTGCCAAGGTAGAAGCCTCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGtt < 1:1485907/66‑1 (MQ=255)
|
CCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTT > minE/1014543‑1014676
|
| 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
