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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,413,523 |
G→A |
37.8% |
S47F (TCC→TTC) |
ydaO ← |
predicted C32 tRNA thiolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,413,523 | 0 | G | A | 37.8%
| 38.2
/ 46.9
| 45 | S47F (TCC→TTC) | ydaO | predicted C32 tRNA thiolase |
| Reads supporting (aligned to +/- strand): ref base G (15/13); new base A (10/7); total (25/20) |
| Fisher's exact test for biased strand distribution p-value = 7.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GATTGGCGCGCTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGCCCACGTTAC > W3110S.gb/1413459‑1413592
|
gattgGCGCGCTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAgg > 1:4239867/1‑70 (MQ=255)
gattgGCGCGCTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAgg > 1:517119/1‑70 (MQ=255)
ttgGCGCGCTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCaa < 1:892039/71‑1 (MQ=255)
ttgGCGCGCTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCaa < 1:885723/71‑1 (MQ=255)
cgcTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCat < 1:4881568/70‑1 (MQ=255)
gcTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCatga > 1:988988/1‑71 (MQ=255)
gcTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGAAGAGGCAAACCatga > 1:4845393/1‑71 (MQ=255)
aTTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCct < 1:2700512/70‑1 (MQ=255)
tGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCcttct > 1:1827795/1‑71 (MQ=255)
tGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCcttct > 1:1953303/1‑71 (MQ=255)
cAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCaa < 1:4016047/71‑1 (MQ=255)
gAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCg < 1:371340/55‑1 (MQ=255)
gAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCg < 1:2857228/55‑1 (MQ=255)
aaTCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCa < 1:4184269/71‑1 (MQ=255)
aaTCTCCAGCATGGTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCa > 1:4757464/1‑71 (MQ=255)
tctcCAGCATGGTATAGCTGTCTTTACCCCCGGAGAgg > 1:982040/1‑38 (MQ=255)
tctcCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCata > 1:736274/1‑71 (MQ=255)
tctcCAGCATGGTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGTTCGCCTTCTTCAATCata > 1:1915337/1‑71 (MQ=255)
tcCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCg < 1:2672865/50‑1 (MQ=255)
tcCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCg < 1:1718322/50‑1 (MQ=255)
tcCAGCATGGTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATAtt > 1:3989526/1‑71 (MQ=255)
cATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGt < 1:4136052/71‑1 (MQ=255)
cATGGTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCg < 1:1304680/45‑1 (MQ=255)
gTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGc < 1:2649123/71‑1 (MQ=255)
gTATAGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGc < 1:4119267/71‑1 (MQ=255)
tataGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGc > 1:1121193/1‑70 (MQ=255)
tataGCTGTCTTTACCCCCGAAGAGGCAAACCATGATGc < 1:3562744/39‑1 (MQ=255)
taGCTGTCTTTACCCCCGGAGAGGCAAACCATAATGCg < 1:89605/38‑1 (MQ=255)
gCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAAt > 1:3363542/1‑51 (MQ=255)
gCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCa > 1:1117111/1‑67 (MQ=255)
gCTGTCTTTACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCa > 1:3338377/1‑67 (MQ=255)
tGTCTTTACCCCAGGAGAGGCAAACCATGATGCGAt > 1:892057/1‑36 (MQ=255)
gTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCat < 1:4838586/51‑1 (MQ=255)
tttACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGc > 1:311132/1‑71 (MQ=255)
tttACCCCCGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGc > 1:1329488/1‑71 (MQ=255)
ttACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGcc > 1:4412424/1‑71 (MQ=255)
ttACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGcc > 1:1846085/1‑71 (MQ=255)
cccccGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGaa > 1:4355774/1‑50 (MQ=255)
ccccGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAg < 1:3550049/54‑1 (MQ=255)
cccGAAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGCCCACGt < 1:2161468/71‑1 (MQ=255)
ccGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGc < 1:4526284/53‑1 (MQ=255)
ccGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCa > 1:1251722/1‑54 (MQ=255)
cGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGaa > 1:2609099/1‑46 (MQ=255)
cGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGaa > 1:366397/1‑46 (MQ=255)
cGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGCCCACGTTa > 1:2896542/1‑71 (MQ=255)
ggAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCaa > 1:3510449/1‑53 (MQ=255)
gagaGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGCCCACGTTac > 1:1956180/1‑70 (MQ=255)
|
GATTGGCGCGCTTTGCTGCAAATTGCGCAGAATCTCCAGCATGGTATAGCTGTCTTTACCCCCGGAGAGGCAAACCATGATGCGATCGCCTTCTTCAATCATATTGAAGTCAGCAATGGCTTCGCCCACGTTAC > W3110S.gb/1413459‑1413592
|
| 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
