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 |
2,513,416 |
T→C |
100% |
F203S (TTT→TCT) |
gltS → |
glutamate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,513,416 | 0 | T | C | 100.0%
| 32.9
/ NA
| 10 | F203S (TTT→TCT) | gltS | glutamate transporter |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (0/10); total (0/10) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTG > minE/2513402‑2513456
|
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:1049699/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:1116578/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:1214055/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:1783248/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:1808965/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:2005250/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:2014993/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:2049539/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:349280/55‑1 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTg < 1:681479/55‑1 (MQ=255)
|
AGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTG > minE/2513402‑2513456
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
