Digest file export

The digest file is exported with Export|Save digest file as. The file name as the syntax

<project name>_<genome assembly>_<restriction site>_digests.txt

For instance, example_hg19_AAGCTT_digests.txt.

The first line of this file contains the column names, and all other lines correspomd to one restriction digest. Each line consists of 14 fields that are described in the table .

Column	Name	Example	Description
1	Chromosome	chr1	Name of the reference sequence.
2	Digest_Start_Position	18376	1-based start position of the restriction digest.
3	Digest_End_Position	18392	1-based end position of the restriction digest.
4	Digest_Number	42	Consecutive digest number.
5	5’_Restriction_Site	DpnII	Name of the enzyme responsible for the cut at the 5’ end of the digest.
6	3’_Restriction_Site	DpnII	Name of the enzyme responsible for the cut at the 3’ end of the digest. May be different from field 5 if more than one enzyme is used.
7	Length	1245	Length of the digest.
8	5’_GC_Content	0.500	GC content of the upstream margin (GOPHER’s default margin size is 250 bp).
9	3’_GC_Content	0.500	GC content of the downstream margin.
10	5’_Repeat_Content	0.138	Repeat content of the upstream margin.
11	3’_Repeat_Content	0.126	Repeat content of the downstream margin.
12	Enrichment_status	T (or F)	Enrichment status of the digest. A digest is considered enriched, if it has at least one probe.
13	5’_Probes	2	Number of probes for the upstream margin.
14	3’_Repeat_Content	0	Number of probes for the downstream margin.