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 F1 I1 R1
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,280,706 |
A→G |
pseudogene (6/402 nt) |
agaW → |
N‑acetyl‑D‑galactosamine specific PTS truncated enzyme IIC component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,280,706 | 0 | A | G | 100.0%
| 107.6
/ NA
| 31 | pseudogene (6/402 nt) | agaW | N‑acetyl‑D‑galactosamine specific PTS truncated enzyme IIC component |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/15); total (16/15) |
TGGAATGCTTCGTTCAGGGCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAAATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGCCTAACCCA > NC_000913/3280629‑3280783
|
tGGAATGCTTCGTTCAGGGCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATc < 2:552093/81‑1 (MQ=255)
tGGAATGCTTCGTTCAGGGCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATc < 1:552093/81‑1 (MQ=255)
gCTTCGTTCAGGGCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTg > 1:552132/1‑81 (MQ=255)
ttCAGGGCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAg < 2:552094/81‑1 (MQ=255)
cAGGGCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAgg > 2:552132/1‑80 (MQ=255)
gCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCAttt < 1:552096/81‑1 (MQ=255)
gTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGc > 1:552150/1‑81 (MQ=255)
cccGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGt > 1:552137/1‑81 (MQ=255)
agagCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCa > 2:552133/1‑81 (MQ=255)
agagCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCa > 2:552137/1‑81 (MQ=255)
agagCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCa > 1:552142/1‑81 (MQ=255)
gagCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCAt > 2:552135/1‑81 (MQ=255)
gagCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCAt < 1:552097/81‑1 (MQ=255)
ccTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTAt > 1:552153/1‑81 (MQ=255)
ctgctgTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATc > 1:552139/1‑81 (MQ=255)
ctgctgTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATc < 2:552097/81‑1 (MQ=255)
ctgctgTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATc < 1:552099/81‑1 (MQ=255)
gtgGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCtt > 1:552154/1‑81 (MQ=255)
tgGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCt < 2:552100/79‑1 (MQ=255)
tgGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCt < 1:552100/79‑1 (MQ=255)
gACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTAt < 2:552101/81‑1 (MQ=255)
gACCTCTTTAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTAt > 2:552147/1‑81 (MQ=255)
tttAAATTACTTTGAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTgg > 1:552156/1‑81 (MQ=255)
gAGGGATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGtt < 1:552103/80‑1 (MQ=255)
gATTCATCATGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACg < 1:552104/81‑1 (MQ=255)
catcatGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGcc < 1:552105/80‑1 (MQ=255)
atcatGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGCCt < 2:552105/80‑1 (MQ=255)
catGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGCCTAAc > 2:552157/1‑81 (MQ=255)
atGGAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGCCTAAcc < 2:552106/81‑1 (MQ=255)
ggAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGCCTAACCCa > 1:552145/1‑81 (MQ=255)
ggAGATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGCCTAACCCa > 2:552154/1‑81 (MQ=255)
|
TGGAATGCTTCGTTCAGGGCGTCCCGACAGAGCCTGCTGTGGACCTCTTTAAATTACTTTGAGGGATTCATCATGGAAATCAGCCTGTTGCAGGCATTTGCGTTGGGCATTATCGCCTTTATCGCTGGCCTGGATATGTTTAACGGCCTAACCCA > NC_000913/3280629‑3280783
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
