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 |
|
A3 F2 I1 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
223,627 |
T→A |
74.4% |
intergenic (+47/+10) |
prfH → / ← pepD |
predicted peptide chain release factor/aminoacyl‑histidine dipeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 223,627 | 0 | T | A | 74.4%
| 64.0
/ 23.3
| 39 | intergenic (+47/+10) | prfH/pepD | predicted peptide chain release factor/aminoacyl‑histidine dipeptidase |
| Reads supporting (aligned to +/- strand): ref base T (3/7); new base A (12/17); total (15/24) |
| Fisher's exact test for biased strand distribution p-value = 7.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
ATGGCTTTTATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTCAGCAGTGTCCAGTAATGAC > Exported/223560‑223689
|
aTGGCTTTTATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCatat > 1:513021/1‑70 (MQ=255)
aTGGCTTTTATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCaaat > 1:1405190/1‑70 (MQ=255)
gCTTTTATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCaaa < 1:660179/71‑1 (MQ=255)
ttATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCATATCAaataat > 1:4802136/1‑71 (MQ=255)
ttATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAaataa < 1:1876211/70‑1 (MQ=255)
tATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCATATCAaataa > 1:3172538/1‑69 (MQ=255)
tATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAaataat < 1:5349290/70‑1 (MQ=255)
tCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTAc < 1:1142462/71‑1 (MQ=255)
tAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATc < 1:2138658/53‑1 (MQ=255)
aTGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGa < 1:1167490/70‑1 (MQ=255)
aaGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAAttt < 1:4453716/71‑1 (MQ=255)
aaGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAAttt > 1:2846230/1‑71 (MQ=255)
aGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAAttt < 1:525247/70‑1 (MQ=255)
gATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAAt < 1:435002/66‑1 (MQ=255)
ccGGAAGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGt < 1:5091499/69‑1 (MQ=255)
ccGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAAtt < 1:2889224/43‑1 (MQ=255)
ccGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGtt < 1:803871/70‑1 (MQ=255)
cGGAAGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtca < 1:1241154/71‑1 (MQ=255)
cGGAAGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtca < 1:1785425/71‑1 (MQ=255)
cGGAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtca < 1:5318717/71‑1 (MQ=255)
ggAAGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGtt < 1:1319656/68‑1 (MQ=255)
gAAGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtcagt > 1:5414332/1‑71 (MQ=255)
tggCGTTTAATCGCCTTCCGGCAGTAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtcagt > 1:3658445/2‑69 (MQ=25)
tggCGTTTAATCGCCTTCCGGCAGTAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtcag > 1:5426807/2‑68 (MQ=25)
aGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtcagtca < 1:4434603/71‑1 (MQ=255)
aGGCGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGaa > 1:4945021/1‑50 (MQ=255)
gCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTcagc < 1:2478385/71‑1 (MQ=255)
cGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTcagca < 1:3647297/71‑1 (MQ=255)
cGATTAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTcagca < 1:1178868/71‑1 (MQ=255)
aTTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTcagc < 1:1453631/68‑1 (MQ=255)
tAAACGCCATCCGGCAGCAAATCAAATAATTACTTc < 1:4733738/36‑1 (MQ=255)
tAAACGCCATCCGGCAGCAAATCAAATAATTACTTc < 1:874660/36‑1 (MQ=255)
tAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTcagca > 1:5023277/1‑55 (MQ=255)
tAAACGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTCAGCAgtgt > 1:499984/1‑71 (MQ=255)
aaCGCCATCCGGCAGCAAATCAAATAATTACTTCGc > 1:2138884/1‑36 (MQ=255)
aaCGCCATCCGGCAGCAAATCAAATAATTACTTCGc > 1:5603102/1‑36 (MQ=255)
aaCGCCATCCGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTCAGCAGTGTc > 1:5139722/1‑70 (MQ=255)
cGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTcagcag > 1:2450013/1‑57 (MQ=255)
cGGCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTCAGCAGTGTCCAGTAATGAc > 1:476510/1‑71 (MQ=255)
ggCAGCAAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtcagt > 1:568237/1‑50 (MQ=255)
gcaAATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTtcagtcag < 1:3017110/49‑1 (MQ=255)
|
ATGGCTTTTATCGAAGGATAATGAAGGATGAAACTGCCGGAAGGCGATTAAACGCCATCCGGCAGCATATCAAATAATTACTTCGCCGGAATTTCTTTCAGCAGTTCAGTCAGCAGTGTCCAGTAATGAC > Exported/223560‑223689
|
| 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
