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 |
2,068,647 |
T→C |
20.6% |
E381E (GAA→GAG) |
aer ← |
fused signal transducer for aerotaxis sensory component and methyl accepting chemotaxis component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,068,647 | 0 | T | C | 20.6%
| 121.1
/ 26.9
| 63 | E381E (GAA→GAG) | aer | fused signal transducer for aerotaxis sensory component and methyl accepting chemotaxis component |
| Reads supporting (aligned to +/- strand): ref base T (27/23); new base C (7/6); total (34/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.76e-01 |
GGCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCGTTAA > minE/2068578‑2068717
|
ggCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGtt > 1:1260742/1‑71 (MQ=255)
ggCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGtt > 1:2271021/1‑71 (MQ=255)
aTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCgg < 1:1934680/71‑1 (MQ=255)
ttAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGcc < 1:2562609/68‑1 (MQ=255)
ttAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCgg < 1:4988295/70‑1 (MQ=255)
tAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCa > 1:4627060/1‑71 (MQ=255)
aGCGCTGCGGCTGGCTAAATGCCGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCg > 1:3394627/1‑67 (MQ=255)
aGCGCTGCGGCTGGCTAAATGCCGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCAc > 1:1497492/1‑71 (MQ=255)
aGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCg > 1:288336/1‑67 (MQ=255)
cgcTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCAcgc < 1:2795825/71‑1 (MQ=255)
gcTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCAcgcg < 1:3653829/71‑1 (MQ=255)
cTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACgcgc < 1:31476/71‑1 (MQ=255)
tacGGCTGGCAAGATTGCGCACTTCCCCTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCgagc > 1:949004/3‑70 (MQ=255)
cGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGc > 1:2561294/1‑58 (MQ=255)
ctggctAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCGTc > 1:5514198/1‑71 (MQ=255)
ctAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTc < 1:5691084/49‑1 (MQ=255)
aaaTGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTc < 1:96151/47‑1 (MQ=255)
aTGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGt > 1:591358/1‑43 (MQ=255)
aTGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGc > 1:3498637/1‑47 (MQ=255)
tGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCAccgccg > 1:2579055/1‑70 (MQ=255)
tGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCAccgcc > 1:4293917/1‑69 (MQ=255)
aCGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgcc < 1:3152915/55‑1 (MQ=255)
aCGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgcc < 1:3223092/55‑1 (MQ=255)
aCGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgcc < 1:5137532/55‑1 (MQ=255)
cGCACTTCACCTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCAtt < 1:4839485/71‑1 (MQ=255)
ttCACCTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAggg > 1:4406751/1‑71 (MQ=255)
tcaccTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCa > 1:3808880/4‑67 (MQ=255)
tcaccTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGc > 1:1607488/4‑71 (MQ=255)
tCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCa > 1:3851941/1‑55 (MQ=255)
tCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCa > 1:5501552/1‑55 (MQ=255)
ccccTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGc > 1:3133454/1‑70 (MQ=255)
ccTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAg < 1:3115023/71‑1 (MQ=255)
tGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCAtt < 1:1804907/60‑1 (MQ=255)
tGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGaa > 1:4876798/1‑71 (MQ=255)
gCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGCCAGaa > 1:551201/1‑70 (MQ=255)
gCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGaa > 1:3128799/1‑70 (MQ=255)
ccactaCCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGCCAGaa < 1:1596229/69‑1 (MQ=255)
ccaccaCTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCAc > 1:1004843/1‑49 (MQ=255)
caccacTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAatat < 1:3381062/71‑1 (MQ=255)
caccacAGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAatat > 1:1366067/1‑71 (MQ=255)
ccacTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTg < 1:3391711/71‑1 (MQ=255)
ccacCGCAAAACCGCGCCCTTGCTCACCCGCACGCGCAGCCTCAACCGCCGCGTTCAAAGCCAGAATATTg < 1:5665247/71‑1 (MQ=255)
ccacCGCAAAACCGCGCCCTTGCTCACCCGCACGCGCAGCCTCAACCGCCGCGTTCAAAGCCAGAATATTg > 1:2145271/1‑71 (MQ=255)
acTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCa > 1:872275/1‑55 (MQ=255)
acTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGt > 1:1418717/1‑71 (MQ=255)
cTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTc < 1:983823/40‑1 (MQ=255)
cTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTc > 1:4854925/1‑71 (MQ=255)
cAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAg > 1:560931/1‑52 (MQ=255)
cAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTg < 1:3944400/70‑1 (MQ=255)
aaaaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAata > 1:5113625/1‑61 (MQ=255)
aaaaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAata > 1:915605/1‑61 (MQ=255)
aaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTc < 1:4460276/47‑1 (MQ=255)
aaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAAc < 1:3913188/71‑1 (MQ=255)
aaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAAc < 1:210974/71‑1 (MQ=255)
aaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAAc < 1:310011/71‑1 (MQ=255)
aaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAAc > 1:2298716/1‑71 (MQ=255)
ccTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACg > 1:2514079/1‑70 (MQ=255)
ccTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGc < 1:1503705/71‑1 (MQ=255)
ccTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGc < 1:61465/71‑1 (MQ=255)
cTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCa < 1:3548251/71‑1 (MQ=255)
ggCCCTGCTCGCCGGCGCGCGCCGCTTCGACcgccgc > 1:1004657/2‑37 (MQ=25)
cccTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGCCAGAATATTGGTCTGGAAAGCAattcc < 1:2684443/71‑4 (MQ=255)
ccTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCg > 1:5478507/1‑71 (MQ=255)
cTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCAtt < 1:74979/36‑1 (MQ=16)
tGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCGt > 1:5684660/1‑70 (MQ=255)
gTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCGtt > 1:4153744/1‑70 (MQ=255)
ttCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATAtt > 1:4971986/1‑48 (MQ=255)
ttCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATAtt > 1:1426970/1‑48 (MQ=255)
ttCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCGTTaa > 1:3250491/1‑71 (MQ=255)
ttCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCGTTaa < 1:3532087/71‑1 (MQ=255)
|
GGCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCGTTAA > minE/2068578‑2068717
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
