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 |
|
A12 F204 I0 R1
|
247 |
174.3 |
8556966 |
94.2% |
8060661 |
99.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
3,427,068 |
Δ1 bp |
100% |
intergenic (‑35/+8) |
alaU ← / ← ileU |
tRNA‑Ala/tRNA‑Ile |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,427,068 | 0 | T | . | 60.0%
| ‑6.5
/ 4.8
| 5 | intergenic (‑35/+8) | alaU/ileU | tRNA‑Ala/tRNA‑Ile |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base . (0/3); minor base G (0/2); total (0/5) |
| 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 |
CGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC‑CGTGCAAATTTGGTAG > NC_000913/3426977‑3427081
|
cGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACG‑GCAAAttt < 1:3341829/100‑1 (MQ=1)
cGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACG‑GCAAAttt < 2:1635714/100‑1 (MQ=1)
cGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACG‑GCAAAttt < 2:4004250/100‑1 (MQ=1)
agcctcAGACCTCTTGCGGGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGACGCATAACATGTAGTTAAAACCTCTTCAAATTTGC‑ACGGCAAATTTg < 1:220575/94‑1 (MQ=1)
cggaGACGTGCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTAGAGCCCCATAACATGTAGTTAAAACCTCGTCAAATTTGC‑ACGGCAAATTTgaaga < 1:1837425/97‑5 (MQ=1)
|
CGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC‑CGTGCAAATTTGGTAG > NC_000913/3426977‑3427081
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
