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MASON VARIATOR
==============
__OPTIONS_____________________________________________________________________
FASTA IN adeno_virus.fa
SV SIZE TSV IN variants.var10.tsv
VCF OUT random_var10.vcf
FASTA OUT random_var10.fasta
BREAKPOINT TSV OUT
METHYLATION IN FILE
GENERATE VAR IDS YES
NUM HAPLOTYPES 1
HAPLOTYPE SEP "/"
SNP RATE 0.0001
SMALL INDEL RATE 1e-06
MIN SMALL INDEL SIZE 1
MAX SMALL INDEL SIZE 6
SV INDEL RATE 1e-07
SV INVERSION RATE 1e-07
SV TRANSLOCATION RATE 1e-07
SV DUPLICATION RATE 1e-07
MIN SV SIZE 50
MAX SV SIZE 1000
SIM. METHYL. LEVELS 0
METHYLATION LEVELS
CG MU 0.6
CG SIGMA 0.03
CHG MU 0.08
CHG SIGMA 0.008
CHH MU 0.05
CHH SIGMA 0.005
__PREPARATION_________________________________________________________________
Loading Reference Index adeno_virus.fa ... OK (1 seqs)
__SIMULATION__________________________________________________________________
Variation Sizes variants.var10.tsv ... OK
Simulation...
gi|56160436|ref|AC_000005.1|
snps: 5
small indels: 0
structural variants: 3
OK.
DONE.
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