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 |
|
A3 F2 I1 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
775,487 |
C→T |
42.5% |
T370T (ACC→ACT) |
icd → |
isocitrate dehydrogenase, specific for NADP+ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 775,487 | 0 | C | T | 42.5%
| 45.1
/ 95.8
| 87 | T370T (ACC→ACT) | icd | isocitrate dehydrogenase, specific for NADP+ |
| Reads supporting (aligned to +/- strand): ref base C (20/30); new base T (20/17); total (40/47) |
| Fisher's exact test for biased strand distribution p-value = 2.77e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.71e-01 |
CAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTC > Exported/775419‑775556
|
cAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCg > 1:3467118/1‑70 (MQ=255)
aGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGaa < 1:3406730/71‑1 (MQ=255)
gACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGc < 1:1780961/71‑1 (MQ=255)
aaaaGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAg > 1:3128897/2‑68 (MQ=255)
aaGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCt > 1:2366848/1‑71 (MQ=255)
aTCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCTCCACATGGGTTGGACCGAAGCGGCTGACtt > 1:2604795/1‑70 (MQ=255)
gCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTg < 1:2855008/69‑1 (MQ=255)
tctATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTa > 1:5074671/1‑70 (MQ=255)
ctATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGtt < 1:4630290/68‑1 (MQ=255)
tattatTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAg > 1:4560182/1‑71 (MQ=255)
attattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTaa > 1:4121525/1‑61 (MQ=255)
ttattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAAt < 1:4349474/61‑1 (MQ=255)
ttattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAgg < 1:4172312/70‑1 (MQ=255)
tattCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGt < 1:1409386/70‑1 (MQ=255)
attCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTAt > 1:3348039/1‑71 (MQ=255)
ttCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTAt < 1:1629049/70‑1 (MQ=255)
tctctcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATg > 1:991582/1‑70 (MQ=255)
tcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTAt > 1:4111056/1‑65 (MQ=255)
tcCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTAt > 1:2455663/1‑65 (MQ=255)
ccGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGtt > 1:2983368/1‑56 (MQ=255)
cGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAgcc < 1:5646367/70‑3 (MQ=255)
cGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGgcg > 1:1289415/1‑71 (MQ=255)
cGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGgcg > 1:1284159/1‑71 (MQ=255)
cGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGgcg > 1:2200157/1‑71 (MQ=255)
gagaTGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAg > 1:1381896/1‑64 (MQ=255)
agaTGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATc < 1:1025373/71‑1 (MQ=255)
gatgatGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATgg < 1:5351897/59‑1 (MQ=255)
gatgatGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATgg < 1:3141336/59‑1 (MQ=255)
gatgatGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCa < 1:2100080/71‑1 (MQ=255)
gatgatGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCa < 1:327385/71‑1 (MQ=255)
ctaatgCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaa < 1:4250170/68‑1 (MQ=255)
gatgCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAcg > 1:1165095/1‑71 (MQ=255)
gatgCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAAcg > 1:94836/1‑71 (MQ=255)
aatgCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaatg > 1:2445968/2‑69 (MQ=255)
aatgCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaatg > 1:3045760/2‑69 (MQ=255)
aatgCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCaatg > 1:454705/2‑69 (MQ=255)
atgCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgc > 1:1574736/1‑71 (MQ=255)
tgctgcGCCATATGGGTTTGACTTAAGCGGCTGACCTGATTGTTAAAgg < 1:4330108/49‑1 (MQ=255)
tgctgcGCCATATGGGTTGGTCTGAAGCGGCTGACCTGATTGTTAAAgg < 1:1080114/49‑1 (MQ=255)
tgctgcGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAgg < 1:3782503/49‑1 (MQ=255)
gctgcGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTa < 1:5342534/50‑1 (MQ=255)
ctgcGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgcca < 1:989573/70‑3 (MQ=255)
ctgcGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCaa < 1:1203667/71‑1 (MQ=255)
ctgcGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGaa < 1:4835775/71‑1 (MQ=255)
ctgcGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGa < 1:312725/70‑1 (MQ=255)
cgcCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCaag < 1:239143/69‑2 (MQ=255)
gcCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAAcc < 1:5537158/71‑1 (MQ=255)
ccACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAgg < 1:2080807/42‑1 (MQ=255)
ccACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCg < 1:5590726/71‑1 (MQ=255)
ataTGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgcc < 1:3276543/60‑2 (MQ=255)
ataTGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgcc < 1:1050245/60‑2 (MQ=255)
acaTGGGTTGGACCGAAGCGGCTGACTTAATTGTTTAAGGTa < 1:2474800/42‑1 (MQ=255)
taTGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgcc < 1:3320052/60‑2 (MQ=255)
taTGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAAtgcc < 1:285809/60‑2 (MQ=255)
caTGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAgg < 1:1570199/39‑1 (MQ=255)
caTGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAgg < 1:320135/39‑1 (MQ=255)
caTGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATgg < 1:2398603/44‑1 (MQ=255)
caTGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATgg < 1:4666332/44‑1 (MQ=255)
caTGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTaa > 1:487027/1‑71 (MQ=255)
aTGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGaa > 1:53155/1‑45 (MQ=38)
aTGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCaa < 1:3990670/52‑1 (MQ=255)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTaaa > 1:1548558/1‑35 (MQ=25)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTaaa > 1:4521184/1‑35 (MQ=25)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTa > 1:2179354/1‑39 (MQ=37)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTa > 1:96939/1‑39 (MQ=37)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTa > 1:5357055/1‑39 (MQ=37)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGgcgc > 1:1761179/1‑49 (MQ=38)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCa > 1:1562587/1‑54 (MQ=38)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCa > 1:1300947/1‑54 (MQ=38)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGAcc > 1:5220178/1‑65 (MQ=255)
tGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGAcc > 1:4222670/1‑65 (MQ=255)
gggTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAAct > 1:2477880/1‑69 (MQ=255)
gggTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAAcc > 1:3917995/1‑70 (MQ=255)
ggTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAActt < 1:4593568/70‑3 (MQ=255)
ggTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCt < 1:1793318/70‑1 (MQ=255)
gTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTAt < 1:1446041/71‑1 (MQ=255)
gTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTAt < 1:2038393/71‑1 (MQ=255)
ttGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATg < 1:344596/71‑1 (MQ=255)
ggACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGa > 1:4061990/1‑37 (MQ=25)
ggACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATc > 1:5673379/1‑47 (MQ=37)
ggACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCaaga > 1:1993168/1‑55 (MQ=255)
ggACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGAc > 1:4050037/1‑71 (MQ=255)
gACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACt < 1:561481/71‑1 (MQ=255)
gACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACt < 1:3039478/71‑1 (MQ=255)
aCCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGgcgc < 1:3058461/41‑1 (MQ=255)
aCCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATc < 1:791951/45‑1 (MQ=255)
aCCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATc < 1:2646944/45‑1 (MQ=255)
ccGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAg > 1:2111704/1‑36 (MQ=255)
ccGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTc < 1:1391276/71‑1 (MQ=255)
|
CAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTC > Exported/775419‑775556
|
| 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
