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 |
873,160 |
Δ1 bp |
100% |
coding (352/975 nt) |
cysB → |
DNA‑binding transcriptional dual regulator, O‑acetyl‑L‑serine‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 873,160 | 0 | C | . | 88.9%
| 23.7
/ ‑1.0
| 9 | coding (352/975 nt) | cysB | DNA‑binding transcriptional dual regulator, O‑acetyl‑L‑serine‑binding |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base . (8/0); total (9/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CAAACGTCATCAAAGGCTTTATTGAGCGTTATCCTCGCGTTTCTTTGCATATGCACCAGGGCTCGCC > minE/873134‑873200
|
cAAACGTCATCAAAGGCTTTATTGAGCGTTATCCTCGCGTTTCTTTGCATATGCACCAGGGCTCGcc > 1:493158/1‑67 (MQ=255)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTc > 1:1268552/1‑35 (MQ=38)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTCGCGTTTCTTTGCa > 1:1205732/1‑48 (MQ=255)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTCGCGTTTCTTTGCa > 1:1237602/1‑48 (MQ=255)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTCGCGTTTCTTTGCa > 1:1661040/1‑48 (MQ=255)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTCGCGTTTCTTTGCa > 1:181734/1‑48 (MQ=255)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTCGCGTTTCTTTGCa > 1:2094487/1‑48 (MQ=255)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTCGCGTTTCTTTGCa > 1:576409/1‑48 (MQ=255)
cAAACGTCATCAAAGGCTTTATTGAG‑GTTATCCTCGCGTTTCTTTGCa > 1:744112/1‑48 (MQ=255)
|
CAAACGTCATCAAAGGCTTTATTGAGCGTTATCCTCGCGTTTCTTTGCATATGCACCAGGGCTCGCC > minE/873134‑873200
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
