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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,383,928 |
C→T |
17.5% |
A66T (GCG→ACG) |
mdh ← |
malate dehydrogenase, NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,383,928 | 0 | C | T | 17.5%
| 95.1
/ 12.5
| 40 | A66T (GCG→ACG) | mdh | malate dehydrogenase, NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (16/17); new base T (5/2); total (21/19) |
| Fisher's exact test for biased strand distribution p-value = 4.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACGATCCATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGA > W3110S.gb/3383862‑3383993
|
aaCGATCCATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGa < 1:391415/71‑1 (MQ=255)
aTCCATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGTCGGAGTCg > 1:2110544/1‑71 (MQ=255)
cccGGTTTACGCGCTACGCCTGCAGAGTTAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCtt < 1:2504362/70‑1 (MQ=255)
cccGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCtt < 1:1811605/70‑1 (MQ=255)
ttACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCa > 1:764195/1‑69 (MQ=255)
ttACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAg > 1:1037436/1‑70 (MQ=255)
cgcgCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGaaaa < 1:478050/71‑1 (MQ=255)
cAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:3871908/70‑1 (MQ=255)
cAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt > 1:2362630/1‑70 (MQ=255)
cAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:2397310/70‑1 (MQ=255)
gaTAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcag > 1:3182168/1‑71 (MQ=255)
gaTAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTAACCAGAAAAACCTTTGATTTTCAtag > 1:1460181/1‑71 (MQ=255)
tAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGaaaa < 1:2762813/52‑1 (MQ=255)
tAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:1389328/64‑1 (MQ=255)
tAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:2267155/64‑1 (MQ=255)
aGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGaaaaag > 1:3782295/1‑51 (MQ=255)
aGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcagcag < 1:1603031/70‑1 (MQ=255)
aGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcagcag > 1:3761619/1‑70 (MQ=255)
aGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcagca > 1:2589668/1‑69 (MQ=255)
aCGACATCTGCGACTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcagcag > 1:1253953/1‑67 (MQ=255)
gACATCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGa < 1:2377814/71‑1 (MQ=255)
tCTGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGa < 1:874035/67‑1 (MQ=255)
tCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGAtttt < 1:3428646/53‑1 (MQ=255)
tCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACC‑TTGATTTTCAcagcag < 1:1451004/60‑1 (MQ=255)
tGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATgg > 1:1893627/1‑70 (MQ=255)
tGCGCCTTCCAGCGTCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGc > 1:407915/1‑71 (MQ=255)
tGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGaaaa > 1:1779860/1‑39 (MQ=255)
tGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcagca > 1:2032142/1‑58 (MQ=255)
tGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGc > 1:3467246/1‑71 (MQ=255)
cgcCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATg < 1:828033/67‑1 (MQ=255)
ccTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAg < 1:3989198/71‑1 (MQ=255)
ccTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAg < 1:461239/71‑1 (MQ=255)
cTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCAcagc < 1:3248863/52‑1 (MQ=255)
ccAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATc > 1:1785273/1‑70 (MQ=255)
ccAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATc > 1:2488715/1‑70 (MQ=255)
cAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGa < 1:3998224/71‑1 (MQ=255)
aGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGa > 1:2594816/1‑70 (MQ=255)
aGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGa > 1:53502/1‑70 (MQ=255)
aGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGa > 1:3129048/1‑70 (MQ=255)
aGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGa > 1:1142770/1‑70 (MQ=255)
|
AACGATCCATACCCGGTTTACGCGCTACGCCTGCAGAGATAAGAACGACATCTGCGCCTTCCAGCGCCGGAGTCGCATCTTCACCAGAAAAACCTTTGATTTTCACAGCAGTAGGGATATGGCTCAGATCGA > W3110S.gb/3383862‑3383993
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
