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 |
2,823,871 |
A→G |
82.0% |
intergenic (+616/+342) |
nrfG → / ← pheU |
heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfG/tRNA‑Phe |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,823,871 | 0 | A | G | 82.0%
| 154.8
/ 25.1
| 72 | intergenic (+616/+342) | nrfG/pheU | heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfG/tRNA‑Phe |
| Reads supporting (aligned to +/- strand): ref base A (3/10); new base G (28/31); total (31/41) |
| Fisher's exact test for biased strand distribution p-value = 1.32e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 |
CCAAAGAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAG > minE/2823804‑2823937
|
ccAAAGAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGAttatta < 1:155501/71‑1 (MQ=255)
aGAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCt < 1:1199788/71‑1 (MQ=255)
aaaaTGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGatta > 1:4950190/1‑61 (MQ=255)
aaaaTGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTg < 1:137084/71‑1 (MQ=255)
aaaTGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTg > 1:4410463/1‑70 (MQ=255)
ttCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGc < 1:3937482/66‑1 (MQ=255)
tCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAg > 1:5300592/1‑70 (MQ=255)
cAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGc > 1:4034402/1‑70 (MQ=255)
aaaaTAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGc > 1:3855404/1‑71 (MQ=255)
aaaTAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCg < 1:1732461/71‑1 (MQ=255)
taatCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGa < 1:950350/61‑1 (MQ=255)
taatCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGa < 1:5010144/61‑1 (MQ=255)
taatCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAAc > 1:1464007/1‑71 (MQ=255)
atCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACt > 1:2241350/1‑70 (MQ=255)
atCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACt < 1:468637/70‑1 (MQ=255)
atCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACt < 1:1009274/70‑1 (MQ=255)
atCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTg < 1:778565/71‑1 (MQ=255)
cATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATa > 1:4759447/1‑71 (MQ=255)
cATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATa > 1:1325757/1‑71 (MQ=255)
aTGGAAAATTGTCCGGAGCACTTACTATTTTAATGGAttgtta > 1:3009616/1‑43 (MQ=255)
tGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCa < 1:2467209/57‑1 (MQ=255)
ggAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGaa > 1:4207375/1‑62 (MQ=255)
ggAAAATTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGaa > 1:418279/1‑62 (MQ=255)
aaTTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTtct > 1:3479534/1‑71 (MQ=255)
aaTTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTtct > 1:1923813/1‑71 (MQ=255)
aTTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATg > 1:2479940/1‑47 (MQ=255)
aTTGTCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATg > 1:1228875/1‑47 (MQ=255)
tCCGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCttt < 1:2875738/70‑1 (MQ=255)
tCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTg < 1:3673055/71‑1 (MQ=255)
cGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATg < 1:4655763/41‑1 (MQ=255)
cGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATg < 1:1752600/41‑1 (MQ=255)
cGGAGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGt > 1:4044053/1‑70 (MQ=255)
ggAGCACTTACTATTTTAATGGATTGTTAGTCTTTGc < 1:1708501/37‑1 (MQ=255)
aGCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACAt < 1:955252/57‑1 (MQ=255)
gCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCa > 1:1603865/1‑71 (MQ=255)
gCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCa > 1:1321533/1‑71 (MQ=255)
gCACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCa > 1:4115694/1‑71 (MQ=255)
cACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTtctc < 1:167283/69‑1 (MQ=255)
cACTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGACACATTTCTCTTTGTtctc < 1:1267883/69‑1 (MQ=255)
aCTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGaa > 1:4468569/1‑45 (MQ=255)
aCTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGaa > 1:1540343/1‑45 (MQ=255)
cTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCAt > 1:4262048/1‑69 (MQ=255)
cTTACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCAt > 1:4355258/1‑69 (MQ=255)
cTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCg < 1:5071217/42‑1 (MQ=255)
ttACTATTTTAATTGATTGTTAGTCTTTGCATGAGCAAGCGAACTGa < 1:4067033/47‑1 (MQ=255)
ttACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGtt < 1:4150832/63‑1 (MQ=255)
ttACTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGtt < 1:5203381/63‑1 (MQ=255)
aCTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTg > 1:928502/1‑44 (MQ=255)
aCTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTctct > 1:626071/1‑56 (MQ=255)
aCTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCa < 1:633104/69‑1 (MQ=255)
aCTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAg > 1:2837933/1‑70 (MQ=255)
ctgttttAATGGATTATTAATCTTTGCATATTCAAATGGACTGATAAACCTTTCTCTGTTTACATCCAGaa < 1:725613/68‑1 (MQ=255)
ctgttttAATGGATTATTAATCTTTGCATATTCAAATGGACTGATAAACCTTTCTCTGTTTACATCCAGaa < 1:1852988/68‑1 (MQ=255)
cTATTTTAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGa > 1:4186092/1‑70 (MQ=255)
cTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGa > 1:3934662/1‑70 (MQ=255)
cTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGa > 1:1301788/1‑70 (MQ=255)
ttttAATGGATTATTAGTCTTTGCATGAGCAAGCg < 1:3152668/35‑1 (MQ=255)
ttttAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAAt > 1:1164936/1‑71 (MQ=255)
ttttAATGGATTATTAATCTTTGCATATTCAAATGGACTGATAAACCTTTCTCTGTTTACATCCAGaaa < 1:2004004/69‑1 (MQ=255)
ttAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACa > 1:5000199/1‑43 (MQ=255)
ttAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTAATTCAGAAAAta > 1:2056989/1‑69 (MQ=255)
tAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAAtct < 1:5614916/70‑1 (MQ=255)
tAATGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAAtct < 1:2148017/70‑1 (MQ=255)
aaTGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAAtctc < 1:5124004/70‑1 (MQ=255)
aTGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCAtt < 1:3294995/58‑1 (MQ=255)
aTGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCAtt < 1:4147399/58‑1 (MQ=255)
aTGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCAtt < 1:4392639/58‑1 (MQ=255)
aTGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAAtctc < 1:1486434/69‑1 (MQ=255)
aTGGATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCtca < 1:4002675/70‑1 (MQ=255)
gATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAg < 1:2246936/71‑1 (MQ=255)
gATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAg < 1:695184/71‑1 (MQ=255)
gATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAg < 1:2968525/71‑1 (MQ=255)
gATTGTTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAg < 1:3915967/71‑1 (MQ=255)
gATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCtcatca < 1:3081504/70‑1 (MQ=255)
gATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCtcatca < 1:3092828/70‑1 (MQ=255)
|
CCAAAGAAAAATGTTCAGAAAATAATCCATGGAAAATTGTCCGGAGCACTTACTATTTTAATGGATTATTAGTCTTTGCATGAGCAAGCGAACTGATACATTTCTCTTTGTTCTCATTCAGAAAATCTCATCAG > minE/2823804‑2823937
|
| 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
