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 |
|
A16 F258 I0 R1
|
432 |
103.0 |
5191697 |
92.7% |
4812703 |
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 | . | 33.3%
| ‑7.0
/ 2.6
| 3 | intergenic (‑35/+8) | alaU/ileU | tRNA‑Ala/tRNA‑Ile |
| Reads supporting (aligned to +/- strand): ref base T (1/0); major base . (0/1); minor base G (0/1); total (1/2) |
| 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‑CGTGCAAATTTGGTAGGCCTGAGTGGACTTGAACCACCGACC > NC_000913/3426977‑3427107
|
cGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC‑ACGGCAAAttt < 1:252723/100‑1 (MQ=1)
gAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGCACG‑GCAAAtttn < 2:2475413/100‑2 (MQ=1)
accaaGCAGAGCTAAAGCACCATACCATGTAGTTAAAACCTCTGCAAATTTGA‑AATGGAAAATTGCTAGGCCTGAGTGGAATTGAAGCACAGAcc > 1:2011486/5‑95 (MQ=0)
|
CGAACCGCAGACCTCCTGCGTGCAAAGCAGGCGCTCTCCCAGCTGAGCTATAGCCCCATAACATGTAGTTAAAACCTCTTCAAATTTGC‑CGTGCAAATTTGGTAGGCCTGAGTGGACTTGAACCACCGACC > NC_000913/3426977‑3427107
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
