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 |
704,757 |
G→A |
8.5% |
R131H (CGC→CAC) |
nagE → |
fused N‑acetyl glucosamine specific PTS enzyme IICBA components |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 704,757 | 0 | G | A | 8.5%
| 146.6
/ 3.7
| 47 | R131H (CGC→CAC) | nagE | fused N‑acetyl glucosamine specific PTS enzyme IICBA components |
| Reads supporting (aligned to +/- strand): ref base G (20/23); new base A (2/2); total (22/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.65e-01 |
CAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACGTCTGGCC > W3110S.gb/704694‑704823
|
cAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTtgtg > 1:1675346/1‑71 (MQ=255)
cTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGa < 1:435892/71‑1 (MQ=255)
aaCCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGc > 1:373038/1‑71 (MQ=255)
ttGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCg > 1:834101/1‑71 (MQ=255)
ggTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGa > 1:3271402/1‑71 (MQ=255)
tCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGcc < 1:2199239/63‑1 (MQ=255)
tCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCGGAtt > 1:464031/1‑71 (MQ=255)
cGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGAttct > 1:3381644/1‑71 (MQ=255)
cGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGAttct > 1:2900113/1‑71 (MQ=255)
gATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGAttctt < 1:4106410/71‑1 (MQ=255)
gATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGAttctt > 1:4036416/1‑71 (MQ=255)
atatTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGAttcttc > 1:2802358/1‑71 (MQ=255)
atTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTg > 1:991750/1‑71 (MQ=255)
aaaCTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCt > 1:2598891/1‑71 (MQ=255)
cTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGt > 1:4311340/1‑71 (MQ=255)
tGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGAttc < 1:2319023/59‑1 (MQ=255)
ccGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCt > 1:4436335/1‑71 (MQ=255)
cGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTg < 1:1686370/71‑1 (MQ=255)
ggACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTg < 1:3787474/70‑1 (MQ=255)
ggACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTg < 1:3782100/70‑1 (MQ=255)
gACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGAt > 1:2927378/1‑41 (MQ=255)
gACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTggc < 1:4130035/71‑1 (MQ=255)
cTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTtgcgg > 1:2674870/1‑71 (MQ=255)
ttCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCg < 1:911994/46‑1 (MQ=255)
gAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCAttt > 1:2761401/1‑71 (MQ=255)
aGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCAttt > 1:2902219/1‑70 (MQ=255)
aGCTGCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCAttt < 1:2906072/70‑1 (MQ=255)
gCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCAttttt < 1:4288030/71‑1 (MQ=255)
cttcttCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTg < 1:1567666/71‑1 (MQ=255)
cttcGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTgg < 1:1618341/69‑1 (MQ=255)
cttcGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTgg < 1:2666487/69‑1 (MQ=255)
ttcGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCGTGGTGCTGGCGGCCATTTTTgg < 1:3365516/68‑1 (MQ=255)
ttcGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTggc < 1:4277252/56‑1 (MQ=255)
tcGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTAc > 1:3123824/1‑71 (MQ=255)
cggcggCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGc < 1:588419/43‑1 (MQ=255)
cggcggCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGt > 1:1632643/1‑67 (MQ=255)
cggcggCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACg > 1:3927057/1‑71 (MQ=255)
gcggcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGt < 1:1442411/65‑1 (MQ=255)
cggcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACGTCt < 1:1558918/71‑1 (MQ=255)
ggcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACGTCt < 1:4158774/70‑1 (MQ=255)
gcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTggcggca < 1:3761560/53‑2 (MQ=255)
gcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTgg < 1:3393216/48‑1 (MQ=255)
cAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCt < 1:1744271/39‑1 (MQ=255)
aaaCGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTggcgg > 1:3348821/1‑49 (MQ=255)
aaaCGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACGTCTGgcc < 1:868587/71‑1 (MQ=255)
cGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTgg > 1:4014980/1‑43 (MQ=255)
cGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACGTCt < 1:3774439/64‑1 (MQ=255)
|
CAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACGTCTGGCC > W3110S.gb/704694‑704823
|
| 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
