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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,393,837 |
C→T |
12.1% |
R45* (CGA→TGA) |
ycjZ → |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,393,837 | 0 | C | T | 12.1%
| 167.1
/ 11.8
| 58 | R45* (CGA→TGA) | ycjZ | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (24/27); new base T (4/3); total (28/30) |
| Fisher's exact test for biased strand distribution p-value = 7.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.39e-01 |
ACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTT > W3110S.gb/1393768‑1393907
|
aCTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAAc < 1:745430/70‑1 (MQ=255)
cTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGa > 1:605189/1‑71 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTg > 1:2953366/1‑71 (MQ=255)
gTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCATATAGAAGAACGATTg > 1:3009926/1‑71 (MQ=255)
tGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:1958384/71‑1 (MQ=255)
cagcagCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGa < 1:3008367/71‑1 (MQ=255)
gcagcCCGCGTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAtt < 1:1970359/71‑1 (MQ=255)
gcagcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAt > 1:4263437/1‑70 (MQ=255)
agcCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGc > 1:1245680/1‑71 (MQ=255)
cGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTg > 1:538743/1‑60 (MQ=255)
gCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGc < 1:1151499/66‑1 (MQ=255)
ccTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTc > 1:3528328/1‑71 (MQ=255)
ccTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTc < 1:4394727/71‑1 (MQ=255)
cTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg > 1:3583302/1‑58 (MQ=255)
cTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGAtt < 1:478519/62‑1 (MQ=255)
tGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTc < 1:3145703/69‑1 (MQ=255)
aGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTg < 1:3891504/69‑1 (MQ=255)
aGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGa < 1:598643/70‑1 (MQ=255)
cATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACg < 1:1574382/48‑1 (MQ=255)
cATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgc > 1:1922838/1‑71 (MQ=255)
cATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgc > 1:3605132/1‑71 (MQ=255)
aTGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgcg < 1:1010971/71‑1 (MQ=255)
tGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGAcgcg > 1:3059807/1‑70 (MQ=255)
ggCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGAcgcg < 1:1922701/69‑1 (MQ=255)
cgcAGTCAGCTTTAAGCCAGATAATGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAAcc < 1:1675220/71‑1 (MQ=255)
aaGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCAc > 1:1286503/2‑71 (MQ=255)
tCAGCTTTAAGCCAGATAGTGCTTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCAcgcg > 1:1583828/1‑71 (MQ=255)
tCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg < 1:3857891/43‑1 (MQ=255)
tCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCAcgcg < 1:257132/71‑1 (MQ=255)
tCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCAcgcg < 1:3412872/71‑1 (MQ=255)
tCAGCTTTAAGCCAGATAGTGCATCGTATAGAAGAACGATTGGGAtt < 1:3888824/47‑1 (MQ=255)
aGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGa < 1:3494731/56‑1 (MQ=255)
aGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAAc > 1:3086180/1‑63 (MQ=255)
cTTTAAGCCAGATAGTGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGc > 1:3948845/1‑71 (MQ=255)
tttAAGCCAGATAGTGCGTCGTATAGAAGAACGATTgg > 1:2119235/1‑38 (MQ=255)
ttAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGaa > 1:3407926/1‑58 (MQ=255)
tAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCg < 1:1403593/69‑1 (MQ=255)
aGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttg < 1:3790927/70‑1 (MQ=255)
aGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttg < 1:3872361/70‑1 (MQ=255)
gCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCt < 1:4188103/46‑1 (MQ=255)
aGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTcc > 1:2340743/1‑70 (MQ=255)
gATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAAc > 1:164256/1‑51 (MQ=255)
aTAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAAc > 1:2411292/1‑71 (MQ=255)
gTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGa < 1:3459776/45‑1 (MQ=255)
tGCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACgcgc < 1:4501955/53‑1 (MQ=255)
tGCGTCGTATAGAAGAACGATTGGGATTGCGGCtt > 1:84972/1‑35 (MQ=255)
tGCGGCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTTTTCCAACTg < 1:2366836/69‑1 (MQ=255)
gCGTCGTATAGAAGAATGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAg > 1:3612227/1‑71 (MQ=255)
gtATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGc < 1:3546373/71‑1 (MQ=255)
taGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGa < 1:1896277/70‑1 (MQ=255)
gaagaaCGATTGGGATTGCGGCTTCTGACGCGAACCAc < 1:2242579/38‑1 (MQ=255)
gaagaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGc < 1:3625682/70‑1 (MQ=255)
gaagaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCa > 1:3584588/1‑71 (MQ=255)
gaagaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCa > 1:2060491/1‑71 (MQ=255)
agaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATc > 1:206973/1‑71 (MQ=255)
gaaCGATTGTGATTGCGGCTTCTGACGCGAACCACGCGCAGCgttgtt < 1:3342964/48‑1 (MQ=255)
gaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCt > 1:3500657/1‑71 (MQ=255)
gaaCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCt > 1:135031/1‑71 (MQ=255)
aCGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCttt > 1:1319272/1‑71 (MQ=255)
cGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCtttt < 1:3839186/71‑1 (MQ=255)
cGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCtttt < 1:3238419/71‑1 (MQ=255)
|
ACTCGTGCAGCAGCCCGCCTGAGCATGGCGCAGTCAGCTTTAAGCCAGATAGTGCGTCGTATAGAAGAACGATTGGGATTGCGGCTTCTGACGCGAACCACGCGCAGCGTTGTTCCAACTGAAGCGGGCGAGCATCTTTT > W3110S.gb/1393768‑1393907
|
| 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
