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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,111,845 |
A→C |
24.1% |
L702R (CTG→CGG) |
yrfF ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,111,845 | 0 | A | C | 24.1%
| 63.4
/ 44.5
| 54 | L702R (CTG→CGG) | yrfF | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base A (28/13); new base C (7/6); total (35/19) |
| Fisher's exact test for biased strand distribution p-value = 5.06e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.55e-01 |
CAGGGTAGCATAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGATGACGCTGGT > W3110S.gb/4111784‑4111911
|
cAGGGTAGCATAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGt < 1:731276/71‑1 (MQ=255)
aTAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGc > 1:666629/1‑71 (MQ=255)
aTAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGc > 1:822578/1‑71 (MQ=255)
aTAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGc > 1:1511155/1‑71 (MQ=255)
aTAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGc > 1:1428020/1‑71 (MQ=255)
tAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCt > 1:1074044/1‑71 (MQ=255)
tAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCt > 1:409005/1‑71 (MQ=255)
tAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCt > 1:1661219/1‑71 (MQ=255)
tAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCt > 1:1192130/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCttt > 1:271740/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCttt > 1:259561/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCttt > 1:750842/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCt > 1:1317608/1‑69 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1377353/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:391287/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:315084/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:269860/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:25307/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1054173/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:205106/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1779291/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:765350/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:905684/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:874582/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:847180/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1603925/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1460382/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1441007/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1286309/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCttt > 1:1412257/1‑71 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCtt > 1:790063/1‑70 (MQ=255)
aCCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCtt > 1:457540/1‑70 (MQ=255)
ccGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCTTTCat < 1:79944/69‑1 (MQ=255)
ccGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCTTTCat < 1:278972/69‑1 (MQ=255)
ccGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCata < 1:1730377/70‑1 (MQ=255)
ccGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCata < 1:1237592/70‑1 (MQ=255)
cgcgCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCTTTCat < 1:951102/68‑1 (MQ=255)
aaCGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCt > 1:1118795/1‑71 (MQ=255)
cGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGa < 1:1724813/71‑1 (MQ=255)
cGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGa < 1:523939/71‑1 (MQ=255)
gtTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGACAGCTTTCata < 1:1704333/58‑1 (MQ=255)
aTAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCcatcat < 1:1757321/71‑1 (MQ=255)
aTAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCcatcat < 1:1738205/71‑1 (MQ=255)
aTAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCcatcat < 1:493028/71‑1 (MQ=255)
aTAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCcatcat < 1:859408/71‑1 (MQ=255)
aTAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCcatcat < 1:1215779/71‑1 (MQ=255)
aTAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCcatcat < 1:1213262/71‑1 (MQ=255)
aGGCTTTCTGAAGGGGTGATCCGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGa < 1:890777/57‑1 (MQ=255)
aaGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGAt < 1:1743192/69‑1 (MQ=255)
aaGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGAt < 1:1717109/69‑1 (MQ=255)
aTCCGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGATGACGCTGGt > 1:574318/1‑70 (MQ=255)
aTCCGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGATGACGCTGGt > 1:706849/1‑70 (MQ=255)
aTCCGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGATGACGCTGGt > 1:1648973/1‑70 (MQ=255)
aTCCGTTGCGGGTTCAGACAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGATGACGCTGGt < 1:236814/70‑1 (MQ=255)
|
CAGGGTAGCATAACCTGCCGCGCAAACGTGTTATTCGATAAGGCTTTCTGAAGGGGTGATCAGTTGCGGGTTCAGGCAGCTTTCATAATAGGCCTGAATCTCCATCATGCGAGTGCGATGACGCTGGT > W3110S.gb/4111784‑4111911
|
| 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
