SSR Parameters
Minimum Motif Size (bp)
ⓘ
Minimum size of a repeat motif in bp. Default: 1.
Maximum Motif Size (bp)
ⓘ
Maximum size of a repeat motif in bp. Default: 6. Larger values increase
runtime and memory.
Minimum Repeat Length (bp)
ⓘ
Cutoff repeat length. Default: 2 * Max Motif Size. Should be at least twice
the maximum motif size.
If not set, a default based on Max Motif Size will be attempted by DiviSSR (typically 2 * M).
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Annotation Parameters (Used if Annotation File is provided)
Annotation File Format
GFF
GTF
Default: GFF.
Gene Key Attribute
ⓘ
Attribute used as unique identifier for gene name in GFF/GTF. Default:
'gene'. Check your annotation file.
Upstream Promoter Distance (bp)
Upstream distance from TSS. Default: 1000 bp.
Downstream Promoter Distance (bp)
Downstream distance from TSS. Default: 1000 bp.