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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,803,912 |
G→T |
18.3% |
H125N (CAT→AAT) |
thrS ← |
threonyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,803,912 | 0 | G | T | 18.3%
| 141.4
/ 12.5
| 49 | H125N (CAT→AAT) | thrS | threonyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base G (18/22); new base T (5/4); total (23/26) |
| Fisher's exact test for biased strand distribution p-value = 7.16e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01 |
AGTTTCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCAACGTCGTAATAAA > W3110S.gb/1803844‑1803980
|
aGTTTCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCa > 1:1331867/1‑71 (MQ=255)
aGTTTCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCa > 1:682676/1‑71 (MQ=255)
aGTTTCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCa > 1:4180337/1‑71 (MQ=255)
aGTTTCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCa < 1:2246958/71‑1 (MQ=255)
aGTTTCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCa > 1:2246826/1‑71 (MQ=255)
aGTTTCACGCGCTTCGTGCCAGCTGACTTT‑TTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCa > 1:553741/1‑70 (MQ=255)
tttCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATTCATc > 1:321243/1‑71 (MQ=255)
tCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATcc < 1:2141857/70‑1 (MQ=255)
aCGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGc < 1:1571826/70‑1 (MQ=255)
gcgcTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTtc < 1:509741/71‑1 (MQ=255)
gcTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATTCATCCGCTtctc < 1:144276/71‑1 (MQ=255)
ccAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCtt < 1:4067506/71‑1 (MQ=255)
gCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGa < 1:639469/71‑1 (MQ=255)
gACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACAt > 1:4046100/1‑71 (MQ=255)
tttCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTc < 1:4168538/63‑1 (MQ=255)
ttcttcTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCt < 1:2298911/49‑1 (MQ=255)
tcttctTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGa > 1:4517498/1‑63 (MQ=255)
cttcttAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATc > 1:318803/1‑43 (MQ=255)
ttcttAATGACGTCGTAGTTTTTCTCAGCAAGCTCATTCATCCGCTTCTCGAGTGCTTCGACATCTTCCTg > 1:211989/1‑71 (MQ=255)
ttcttAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTg > 1:989255/1‑71 (MQ=255)
tcttAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTtctc < 1:1464693/49‑1 (MQ=255)
tAATGACGTCGTAGTTTTTCTCAGCAAGCTCATTCATCCGCTTCTCGAGTGCTTCGa > 1:436137/1‑57 (MQ=255)
aTGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTaa < 1:3553073/71‑1 (MQ=255)
tcgtAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTa < 1:855545/64‑1 (MQ=255)
cgtAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAg > 1:747592/1‑40 (MQ=255)
gtAGTTTTTCTCAGCAAGCTCATTCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGtt < 1:2067621/61‑1 (MQ=255)
gtAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAg > 1:4607022/1‑39 (MQ=255)
gtAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTaa > 1:4176329/1‑63 (MQ=255)
gtAGTTTTTCTCAGCAAGCTCATGCATCAGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGt > 1:2128649/1‑71 (MQ=255)
gTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGAc < 1:2766693/45‑1 (MQ=255)
tttttCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACg < 1:2747707/61‑1 (MQ=255)
ttttCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTc < 1:735694/40‑1 (MQ=255)
tttCTCAGCAAGCTCATTCATCCGCTTCTCGAGTGc > 1:3061030/1‑36 (MQ=255)
tttCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTc > 1:1505470/1‑66 (MQ=255)
tttCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGa < 1:2922245/70‑1 (MQ=255)
ttCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTc > 1:4235890/1‑47 (MQ=255)
tctcAGCAAGCTCATTCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATc > 1:1756448/1‑70 (MQ=255)
tctcAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATc < 1:3807153/70‑1 (MQ=255)
aGCAAGCTCATTCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCAAcgt < 1:4036902/71‑1 (MQ=255)
aGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCaa < 1:4575031/68‑1 (MQ=255)
cAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCTGTCAAGATCAAc < 1:2323417/67‑1 (MQ=255)
aaGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTc > 1:4116110/1‑39 (MQ=255)
aGCTCATTCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGtt < 1:2928442/45‑1 (MQ=255)
gCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCAACGTCGtaa < 1:3324213/71‑1 (MQ=255)
tCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGtt < 1:2744236/42‑1 (MQ=255)
tCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCAACGTCGtaat > 1:3550249/1‑70 (MQ=255)
tCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCAACGTCGtaa > 1:3644525/1‑69 (MQ=255)
aTGCATCCGCTTCTAGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCAACGTCGTAATaaa < 1:3733765/71‑1 (MQ=255)
tGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTg < 1:3861454/35‑1 (MQ=255)
|
AGTTTCACGCGCTTCGTGCCAGCTGACTTTCTTCTTAATGACGTCGTAGTTTTTCTCAGCAAGCTCATGCATCCGCTTCTCGAGTGCTTCGACATCTTCCTGGGTTAACGTGCGGTCAAGATCAACGTCGTAATAAA > W3110S.gb/1803844‑1803980
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
