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 F8 I0 R1
|
82 |
77.9 |
2158605 |
86.8% |
1873669 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,687,159 |
G→A |
100% |
L374L (CTG→TTG) |
pck ← |
phosphoenolpyruvate carboxykinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,687,159 | 0 | G | A | 100.0%
| 15.5
/ NA
| 6 | L374L (CTG→TTG) | pck | phosphoenolpyruvate carboxykinase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (6/0); total (6/0) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGGTTTGATCGGCAGTCAGGCGAGAAACCGGCGGCAACACGCCGAAAGC > minE/2687141‑2687189
|
gggTTTGATCGGCAGTCAAGCGAGAAACCGGCGGCAACACg > 1:1679614/1‑41 (MQ=255)
gggTTTGATCGGCAGTCAAGCGAGAAACCGGCGGCAACACGCCGAAAGc > 1:1205766/1‑49 (MQ=255)
gggTTTGATCGGCAGTCAAGCGAGAAACCGGCGGCAACACGCCGAAAGc > 1:1237717/1‑49 (MQ=255)
gggTTTGATCGGCAGTCAAGCGAGAAACCGGCGGCAACACGCCGAAAGc > 1:1746779/1‑49 (MQ=255)
gggTTTGATCGGCAGTCAAGCGAGAAACCGGCGGCAACACGCCGAAAGc > 1:751250/1‑49 (MQ=255)
gggTTTGATCGGCAGTCAAGCGAGAAACCGGCGGCAACACGCCGAAAGc > 1:855108/1‑49 (MQ=255)
|
GGGTTTGATCGGCAGTCAGGCGAGAAACCGGCGGCAACACGCCGAAAGC > minE/2687141‑2687189
|
| 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
