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 |
704,757 |
G→A |
31.2% |
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 | 31.2%
| 65.4
/ 38.7
| 48 | R131H (CGC→CAC) | nagE | fused N‑acetyl glucosamine specific PTS enzyme IICBA components |
| Reads supporting (aligned to +/- strand): ref base G (17/16); new base A (7/8); total (24/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.95e-01 |
GTGGCGCAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACG > W3110S.gb/704688‑704816
|
gtggCGCAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGc < 1:18808/71‑1 (MQ=255)
cgcAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTtg < 1:4509308/71‑1 (MQ=255)
cgcAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTtg < 1:4605581/71‑1 (MQ=255)
gCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGcc < 1:1683079/71‑1 (MQ=255)
ccTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACg > 1:3184130/1‑61 (MQ=255)
ccTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACg > 1:1376241/1‑61 (MQ=255)
ccTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACg > 1:2665851/1‑61 (MQ=255)
ccTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACg > 1:1684578/1‑61 (MQ=255)
ccTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGcc < 1:3717884/70‑1 (MQ=255)
ccTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCg < 1:3570225/71‑1 (MQ=255)
ccGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACt < 1:806031/56‑1 (MQ=255)
ccGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCa < 1:3924374/71‑1 (MQ=255)
cGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCAc > 1:5142431/1‑71 (MQ=255)
ttGGTCCTATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCg < 1:1373362/61‑1 (MQ=255)
ttGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCg < 1:3758749/61‑1 (MQ=255)
ttGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCg > 1:4161154/1‑71 (MQ=255)
ccGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCGGAttc > 1:1639830/1‑71 (MQ=255)
cGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGTCAAACGCTTTGTGCCgt > 1:1101123/1‑55 (MQ=255)
cGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCg > 1:465899/1‑65 (MQ=255)
gATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGc < 1:1847348/45‑1 (MQ=255)
tatTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCt < 1:2485458/44‑1 (MQ=255)
atTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGc < 1:1787041/42‑1 (MQ=255)
atTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGa > 1:693595/1‑52 (MQ=255)
atTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGa > 1:3653492/1‑52 (MQ=255)
atTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGa > 1:1429319/1‑52 (MQ=255)
ttAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCttt < 1:1141622/44‑1 (MQ=255)
tAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCg > 1:1971369/1‑49 (MQ=255)
tAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGc > 1:3009528/1‑54 (MQ=255)
aaaCTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCtt > 1:1489195/1‑41 (MQ=255)
aaaCTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCtt > 1:263427/1‑41 (MQ=255)
aaaCTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCtt > 1:209400/1‑41 (MQ=255)
aaCTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCt < 1:3800049/70‑1 (MQ=255)
aaCTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCGGATTCTTCTGCCt < 1:3180562/70‑1 (MQ=255)
cTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGAtt < 1:1060346/48‑1 (MQ=255)
cTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCAc < 1:3330389/53‑1 (MQ=255)
cTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGt > 1:321426/1‑71 (MQ=255)
tGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCAcc < 1:304556/53‑1 (MQ=255)
gCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCg > 1:3041205/1‑53 (MQ=255)
gCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCg > 1:3238983/1‑53 (MQ=255)
ccTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGa > 1:1062949/1‑35 (MQ=255)
ccTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTg > 1:577820/1‑61 (MQ=255)
ccTGAGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCAc > 1:46239/1‑42 (MQ=255)
aGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCAtttt > 1:5140439/1‑71 (MQ=255)
aGCTTCTTCGGCGGCAAACACTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGCCCAtttt < 1:229903/71‑1 (MQ=255)
ggcggcAAACGCTTTGTGCCGCTTGCCACCGGAttctt > 1:4644921/1‑38 (MQ=255)
ggcggcAAACGCTTTGTGCCGATTGCCACCGGAttctt > 1:4153359/1‑38 (MQ=255)
ggcggcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACg < 1:2851356/70‑1 (MQ=255)
gcggcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGtt > 1:2072704/1‑66 (MQ=255)
gcggcAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGtt > 1:1122535/1‑66 (MQ=255)
gcAAACACTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTgg < 1:1083325/48‑1 (MQ=255)
aaCGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTggc < 1:2811732/46‑1 (MQ=255)
aaCGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTggc < 1:647135/46‑1 (MQ=255)
gCTTTGTGCCGGTTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCAttttt < 1:4141715/53‑1 (MQ=255)
gCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCAttttt < 1:4047081/53‑1 (MQ=255)
|
GTGGCGCAGCCTATAACCGTTGGTCCGATATTAAACTGCCGGACTTCCTGAGCTTCTTCGGCGGCAAACGCTTTGTGCCGATTGCCACCGGATTCTTCTGCCTGGTGCTGGCGGCCATTTTTGGTTACG > W3110S.gb/704688‑704816
|
| 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
