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 |
|
A2 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
828,767 |
T→A |
100% |
R177R (CGA→CGT) |
narX ← |
sensory histidine kinase in two‑component regulatory system with NarL |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 828,767 | 0 | T | A | 100.0%
| 25.8
/ NA
| 11 | R177R (CGA→CGT) | narX | sensory histidine kinase in two‑component regulatory system with NarL |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (11/0); total (11/0) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGACGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGTCGCGCCCGCAACCAGATAAT > minE/828721‑828787
|
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:1145078/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:1402134/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:1539648/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:1884586/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:2122327/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:213937/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:2266030/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:370572/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:527404/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:80105/1‑67 (MQ=255)
tgacGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGACGCGCCCGCAACCAGataat > 1:814030/1‑67 (MQ=255)
|
TGACGGCACTCGCCATTGCCAGCAGTTGCCGCCACGGTTGTAGCAGTCGCGCCCGCAACCAGATAAT > minE/828721‑828787
|
| 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
