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 F28 I2 R1
|
28 |
4.9 |
280516 |
80.6% |
226095 |
64.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
540,901 |
Δ1 bp |
coding (114/888 nt) |
rhtA ← |
threonine and homoserine efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 540,899 | 0 | C | . | 100.0%
| 19.8
/ NA
| 6 | coding (116/888 nt) | rhtA | threonine and homoserine efflux system |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (0/6); total (0/6) |
CTTAAAGAACGCGATGAGGATCAGCGTTCCTAATGCCAGACGCAGCGCAGTGACACCCGGTGCGCCCACCAGAGGAAAAAGTGACTTAGCTAACGAGGCTCCACCCTGAATAGACGCCAT > minE/540835‑540954
|
cTTAAAGAACGCGATGAGGATCAGCGTTCCTAATGCCAGACGCAGCGCAGTGACACCCGGTGCG‑CCACCag < 1:271462/71‑1 (MQ=255)
gATCAGCGTTCCTAATGCCAGACGCAGCGCAGTGACACCCGGTGCG‑CCACCAGAGGAAAAAGTGACTTAg < 1:251285/70‑1 (MQ=255)
cagcgcagTGACACCCGGTGCG‑CCACCAGAGGAAAAAGTGACTTAGCTAACGAGGCTCCACCCTGAATAGa < 1:93204/71‑1 (MQ=255)
acacCCGGTGCG‑CCACCAGAGGAAAAAGTGACTTAGCTa < 1:135526/39‑1 (MQ=38)
ggTGCG‑CCACCAGAGGAAAAAGTGACTTAGCTAACGAGGCTCCACCCTGAATAGACGCCAt < 1:133592/61‑1 (MQ=255)
ggTGCG‑CCACCAGAGGAAAAAGTGACTTAGCTAACGAGGCTCCACCCTGAATAGACGCCAt < 1:156549/61‑1 (MQ=255)
|
CTTAAAGAACGCGATGAGGATCAGCGTTCCTAATGCCAGACGCAGCGCAGTGACACCCGGTGCGCCCACCAGAGGAAAAAGTGACTTAGCTAACGAGGCTCCACCCTGAATAGACGCCAT > minE/540835‑540954
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
