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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,014,611 |
A→G |
22.9% |
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 | 22.9%
| 83.8
/ 23.8
| 48 | G486G (GGT→GGC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (20/17); new base G (8/3); total (28/20) |
| Fisher's exact test for biased strand distribution p-value = 3.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.45e-01 |
TCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGC > minE/1014542‑1014678
|
tCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGaccac > 1:3749888/1‑71 (MQ=255)
ccAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTTCGCCAATACAGCGGCCGGaccacc > 1:999837/1‑70 (MQ=255)
cAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGa > 1:998939/1‑71 (MQ=255)
aGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGa > 1:2439872/1‑70 (MQ=255)
ccGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGa > 1:3498711/1‑66 (MQ=255)
gATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCa < 1:1178934/71‑1 (MQ=255)
atatTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGcc > 1:321020/1‑69 (MQ=255)
tCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAgg > 1:1381880/1‑69 (MQ=255)
cAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTa < 1:2045148/70‑1 (MQ=255)
aaCACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg < 1:3894155/70‑1 (MQ=255)
aaCACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAg < 1:192785/70‑1 (MQ=255)
caTTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAgcc < 1:2294078/71‑1 (MQ=255)
aTTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAgccg > 1:3128097/1‑71 (MQ=255)
ttCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAgccg > 1:1118823/1‑70 (MQ=255)
ccAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGccgccg > 1:122986/1‑71 (MQ=255)
cAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgt < 1:731203/71‑1 (MQ=255)
aGGCTCTTAATACTTCCCTGCGCCATTACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgtg < 1:983636/71‑1 (MQ=255)
ggCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgtgt > 1:780063/1‑71 (MQ=255)
ggCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgtgt > 1:705820/1‑71 (MQ=255)
ggCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgtgt > 1:481533/1‑71 (MQ=255)
ggCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgtgt > 1:2730254/1‑71 (MQ=255)
gCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgtgt < 1:3249765/70‑1 (MQ=255)
tctTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGa > 1:304612/1‑57 (MQ=255)
tctTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCgt < 1:1814657/66‑1 (MQ=255)
tctTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGtttt > 1:2830426/1‑71 (MQ=255)
tAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTa > 1:2726405/1‑71 (MQ=255)
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGtt > 1:927201/1‑65 (MQ=255)
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTa > 1:522316/1‑70 (MQ=255)
aaTACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCAAAGGTAGAAGCCGCCGTGtttttt < 1:1505069/69‑1 (MQ=255)
aTACTTCCCTACGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTAc < 1:1032632/70‑1 (MQ=255)
tgcTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTc > 1:689321/3‑71 (MQ=255)
cccTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCa < 1:1169085/69‑1 (MQ=255)
ccTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTa > 1:3333425/1‑43 (MQ=255)
cTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACacg > 1:2586187/1‑63 (MQ=255)
cTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGcg < 1:3625366/67‑2 (MQ=255)
cTGCGCCAGTACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTcgg > 1:3057193/1‑69 (MQ=255)
cagtACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACct > 1:1661580/4‑71 (MQ=255)
aaTACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTa > 1:1843042/1‑54 (MQ=255)
gtACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACctg > 1:283608/2‑70 (MQ=255)
tACCGCCGCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACctgct > 1:3128585/1‑71 (MQ=255)
cAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACctgctg < 1:3721172/70‑1 (MQ=255)
cGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTgctggctg < 1:2730593/71‑1 (MQ=255)
cGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTgctggct > 1:3006410/1‑70 (MQ=255)
gCCGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCg > 1:1321545/1‑71 (MQ=255)
ccGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCgg < 1:421606/71‑1 (MQ=255)
cGGACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGt < 1:1790629/71‑1 (MQ=255)
ggACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGtt < 1:367644/71‑1 (MQ=255)
ggACCGCCGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGt > 1:2382111/1‑70 (MQ=255)
gACCACCGATACTGCCAAGGTAGAAGCCGCCGTGtt < 1:3204316/36‑1 (MQ=255)
gACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTAc < 1:1575686/42‑1 (MQ=255)
accgccGATGCTACCGAGGTAGAAGCCGCCGTGTTTATGACACGCGTCGGTAACCTGCTGACTGCGGttac > 1:2005342/1‑69 (MQ=255)
accaccGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGc < 1:2117837/71‑1 (MQ=255)
accaccGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGc > 1:2014914/1‑71 (MQ=255)
accaccGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGc < 1:1255534/71‑1 (MQ=255)
ccaccGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGt > 1:3467307/1‑50 (MQ=255)
|
TCCCAGTTCCGGATATTCAACACATTCCAGGCTCTTAATACTTCCCTGCGCCAATACAGCGGCCGGACCACCGATACTGCCAAGGTAGAAGCCGCCGTGTTTTTTACAGGCATCCGTCACCTGCTGGCTGCGGTTGC > minE/1014542‑1014678
|
| 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
