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 |
3,705,799 |
A→G |
100% |
E70E (GAA→GAG) |
yieN → |
fused predicted transcriptional regulators |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,705,799 | 0 | A | G | 76.9%
| 20.2
/ 2.9
| 13 | E70E (GAA→GAG) | yieN | fused predicted transcriptional regulators |
| Reads supporting (aligned to +/- strand): ref base A (3/0); new base G (5/5); total (8/5) |
| Fisher's exact test for biased strand distribution p-value = 2.31e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTATTGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAATATCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTCTATTCAGGCGCTAAAAGATG > W3110S.gb/3705735‑3705869
|
gTATTGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAGTATCtg < 1:176857/71‑1 (MQ=255)
tATTGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAGTATCtga > 1:296913/1‑71 (MQ=255)
aTTGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAGTATCtgat > 1:97478/1‑71 (MQ=255)
aTTGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAATATCtgat > 1:1444884/1‑71 (MQ=255)
ttGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAGTATCtgat < 1:320899/70‑1 (MQ=255)
ttGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAGTATCtgat < 1:750263/70‑1 (MQ=255)
gCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAGTATCTGATGAc > 1:1198755/1‑71 (MQ=255)
gCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAATATCtgatgcc > 1:49214/1‑69 (MQ=255)
cGCCTTTCAGAATGCCCGAGCGTTTGAATATCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGt > 1:3109364/1‑70 (MQ=255)
cAGAATGCCCGCGCGTTTGAGTATCTGATGCCCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTc > 1:3578282/1‑71 (MQ=255)
aGAATGCCCGCGCGTTTGAGTATCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTc < 1:1399023/70‑1 (MQ=255)
aGAATGCCCGCGCGTTTGAGTATCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTc < 1:2399136/70‑1 (MQ=255)
aTGCCCGCGCGTTTGAGTATCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTCTAt > 1:2829840/1‑70 (MQ=255)
aaTATCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTCTATTCAGGCGCTAAAAGAt < 1:1918094/71‑1 (MQ=255)
atatCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTCTATTCAGGCGCTAAAAGATg < 1:2751587/71‑1 (MQ=255)
atatCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTCTATTCAGGCGCTAAAAGATg < 1:3701235/71‑1 (MQ=255)
|
GTATTGCCAAAAGTTTGATCGCCCGGCGCTTAAAATTCGCCTTTCAGAATGCCCGCGCGTTTGAATATCTGATGACCCGCTTCTCCACGCCGGAAGAAGTTTTTGGTCCCCTTTCTATTCAGGCGCTAAAAGATG > W3110S.gb/3705735‑3705869
|
| 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
