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 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
531,446 |
C→T |
56.1% |
intergenic (‑1/‑229) |
ybbS ← / → allA |
transcriptional activator of the allD operon/ureidoglycolate hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 531,446 | 0 | C | T | 56.1%
| 9.0
/ 52.7
| 41 | intergenic (‑1/‑229) | ybbS/allA | transcriptional activator of the allD operon/ureidoglycolate hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (6/12); new base T (5/18); total (11/30) |
| Fisher's exact test for biased strand distribution p-value = 4.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.58e-01 |
CGCTTTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTATTTTTA > W3110S.gb/531380‑531514
|
cGCTTTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCa < 1:1427187/71‑1 (MQ=255)
cTTTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAgg < 1:647063/71‑1 (MQ=255)
cTTTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAgg < 1:1878352/71‑1 (MQ=255)
cTTTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAgg < 1:3543929/71‑1 (MQ=255)
cTTTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAgg < 1:2317764/71‑1 (MQ=255)
ttGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGt < 1:1160998/69‑1 (MQ=255)
ttGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGt < 1:2088048/69‑1 (MQ=255)
ccTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTa < 1:468384/69‑1 (MQ=255)
ttCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCg > 1:765590/1‑70 (MQ=255)
ttCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCg > 1:1749263/1‑70 (MQ=255)
cAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCa < 1:2900811/70‑1 (MQ=255)
aGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCaa < 1:1239005/70‑1 (MQ=255)
aGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCaa < 1:1232007/70‑1 (MQ=255)
aGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCaa < 1:2832313/70‑1 (MQ=255)
ccGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCa < 1:1685002/42‑1 (MQ=255)
ccGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCa < 1:2965180/42‑1 (MQ=255)
cGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACAtttt > 1:388959/1‑39 (MQ=255)
cGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACAtttt > 1:111716/1‑39 (MQ=255)
cAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGa < 1:2977052/71‑1 (MQ=255)
aaTGAAAGTCCGCAAGGTTTCTGGATCGAACAtttt < 1:2532336/36‑1 (MQ=255)
aaTGAAAGTCCGCAAGGTTTCTGGATCGAACAtttt < 1:1700478/36‑1 (MQ=255)
aaTAAAAGTCCGCAAGGTTTCTGGATCGAACAtttt < 1:1363139/36‑1 (MQ=37)
tGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATcc < 1:2604631/43‑1 (MQ=255)
tGAAAGTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATcc < 1:115119/43‑1 (MQ=255)
gTCCGCAAGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:1583186/71‑1 (MQ=255)
tCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTAt < 1:2736954/71‑1 (MQ=255)
ccGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATc > 1:2394048/1‑71 (MQ=255)
cGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATc < 1:124420/70‑1 (MQ=255)
aGGTTTCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCctct > 1:2873133/1‑70 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:2818720/61‑1 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:2780995/61‑1 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:2502292/61‑1 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:395393/61‑1 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGAtt < 1:166331/71‑1 (MQ=255)
tttCTGGATCGAACATTTTCAGGTATCCCCTTTTAAATCCGCAAATTGCGTGATTTTCTTATCCTCTGAtt < 1:1432415/71‑1 (MQ=255)
aTCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGt < 1:1742124/71‑1 (MQ=255)
gAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAtt > 1:2785666/1‑71 (MQ=255)
gAACATTTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAtt > 1:225090/1‑71 (MQ=255)
cATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:3123540/48‑1 (MQ=255)
cATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTa < 1:331030/48‑1 (MQ=255)
cATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAtttt > 1:1847084/1‑70 (MQ=255)
cATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAtttt > 1:2977800/1‑70 (MQ=255)
cATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAtttt > 1:2030415/1‑70 (MQ=255)
cATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTAtttt > 1:2484459/1‑70 (MQ=255)
aTCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTATTTTTa < 1:3644304/71‑1 (MQ=255)
tCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTATTTTTa > 1:1986909/1‑70 (MQ=255)
|
CGCTTTTGAAAAACTTCCTGTTTCAGCAACCGCAATGAAAGTCCGCAAGGTTTCTGGATCGAACATCTTCAGGTATCCCCTTTTAAATCCGCAAGTTGCGTGATTTTCTTATCCTCTGATTTATCAGTATTTTTA > W3110S.gb/531380‑531514
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
