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 F28 I1 R2
|
328 |
63.0 |
4687567 |
98.0% |
4593815 |
65.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
887,947 |
G→A |
A35T (GCT→ACT) |
ybjK → |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 887,947 | 0 | G | A | 97.8%
| 128.0
/ ‑5.7
| 45 | A35T (GCT→ACT) | ybjK | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (24/20); minor base C (0/1); total (24/21) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTATCCAGGCCACGCTGGAGGCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTGCTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAGTTGTTACT > W3110S.gb/887882‑888014
|
ttATCCAGGCCACGCTGGAGGCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTAcc < 1:1212419/71‑1 (MQ=255)
gCCACGCTGGAGGCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCgg > 1:4562765/1‑71 (MQ=255)
cACGCTGGAGGCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCgggg > 1:1157175/1‑71 (MQ=255)
cACGCTGGAGGCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCgggg > 1:1952529/1‑71 (MQ=255)
gCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTggg < 1:4633339/71‑1 (MQ=255)
gCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTggg < 1:19703/71‑1 (MQ=255)
tGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTAcc < 1:2478501/47‑1 (MQ=255)
gAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGa > 1:819402/1‑71 (MQ=255)
gAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGa > 1:1515817/1‑71 (MQ=255)
gAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGa > 1:2240984/1‑71 (MQ=255)
gAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGa > 1:3947992/1‑71 (MQ=255)
gAAACTTTACGGAATACATGCTGTTACGCAACGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGa > 1:573689/1‑71 (MQ=255)
aaCTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATg < 1:828309/71‑1 (MQ=255)
aaCTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATg < 1:4100161/71‑1 (MQ=255)
aaCTTTACGGAATACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATg < 1:4008538/71‑1 (MQ=255)
tACATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATc < 1:45230/55‑1 (MQ=255)
cATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTAttttt > 1:2802230/1‑70 (MQ=255)
cATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTAttttt > 1:4485465/1‑70 (MQ=255)
cATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTAttttt > 1:1714651/1‑70 (MQ=255)
cATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTAttttt > 1:569754/1‑70 (MQ=255)
cATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTAttttt > 1:3173818/1‑70 (MQ=255)
cATGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTAtttt > 1:324546/1‑69 (MQ=255)
tGCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAg > 1:4532164/1‑71 (MQ=255)
gCTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAg > 1:658262/1‑70 (MQ=255)
cTGTTACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAgg > 1:678939/1‑70 (MQ=255)
ttATGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAAtt < 1:2989748/71‑1 (MQ=255)
ttACGCACCGCAAAATTCCTACCCTTGCCGGTGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAAtt < 1:3029511/71‑1 (MQ=255)
tACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAAtt > 1:304045/1‑70 (MQ=255)
tACGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAAtt > 1:4591654/1‑70 (MQ=255)
aCGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGaa > 1:2155409/1‑67 (MQ=255)
aCGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAAtt < 1:1503306/69‑1 (MQ=255)
aCGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATtga > 1:3908944/1‑71 (MQ=255)
aCGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATtg < 1:4258456/70‑1 (MQ=255)
cGCACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATtgat < 1:695956/71‑1 (MQ=255)
cACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATtgatga < 1:1223116/71‑1 (MQ=255)
cACCGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATtgatga < 1:2358902/71‑1 (MQ=255)
ccGCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCg < 1:1403801/40‑1 (MQ=255)
gCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAgttg > 1:4164591/1‑71 (MQ=255)
gCAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAgttg > 1:2248564/1‑71 (MQ=255)
cAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAgttgt < 1:2112958/71‑1 (MQ=255)
cAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAgttgt < 1:3939501/71‑1 (MQ=255)
cAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAgttgt < 1:3062470/71‑1 (MQ=255)
cAAAATTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAgttgt < 1:2453061/71‑1 (MQ=255)
aaaaTTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAgttgt < 1:3443336/70‑1 (MQ=255)
aTTACTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAGTTGTTACt > 1:3420365/1‑71 (MQ=255)
|
TTATCCAGGCCACGCTGGAGGCGGTGAAACTTTACGGAATACATGCTGTTACGCACCGCAAAATTGCTACCCTTGCCGGGGTACCGTTGGGATCGATGACCTACTATTTTTCAGGAATTGATGAGTTGTTACT > W3110S.gb/887882‑888014
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
