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 F17 I0 R1
|
71 |
95.7 |
2922988 |
91.7% |
2680379 |
65.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,093,734:1 |
+C |
100% |
coding (2643/3057 nt) |
ydiJ ← |
predicted FAD‑linked oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,093,734 | 1 | . | C | 100.0%
| 17.1
/ NA
| 6 | G881G (GGC→GGG) | ydiJ | predicted FAD‑linked oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (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. |
| Rejected as polymorphism: Polymorphic base substitution creates a homopolymer stretch. |
AAACTCGCCACGCTCCTCG‑CCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGCCGGATC > minE/1093716‑1093784
|
aaaCTCGCCACGCTCCTCGCCCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGCCGGa > 1:2114415/1‑68 (MQ=255)
aaaCTCGCCACGCTCCTCGCCCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGCCGGATc > 1:1005824/1‑70 (MQ=255)
aaaCTCGCCACGCTCCTCGCCCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGCCGGATc > 1:2195571/1‑70 (MQ=255)
aaaCTCGCCACGCTCCTCGCCCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGCCGGATc > 1:499277/1‑70 (MQ=255)
aaaCTCGCCACGCTCCTCGCCCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGCCGGATc > 1:795011/1‑70 (MQ=255)
aaaCTCGCCACGCTCCTCGCCCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGACGGAt > 1:1356650/1‑69 (MQ=255)
|
AAACTCGCCACGCTCCTCG‑CCCAGCGCCAGTTTATATTCATCGCGATAACAAAGTACCAGCGCCGGATC > minE/1093716‑1093784
|
| 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
