Class: [%tf_cluster.class%]
Family: [%tf_cluster.family%]

Conserved [%tf_cluster.name%] Binding Sites:

[%UNLESS gene_id_type == dflt_gene_id_type%] [%END%] [%IF has_operon%] [%END%] [%FOREACH gene = genes%] [%gid = gene.id%] [%promoters = gene.fetch_promoters()%] [%IF gene.strand == 1%] [%prom_start = gene.tss%] [%prom_end = gene.end%] [%ELSE%] [%prom_start = gene.start%] [%prom_end = gene.tss%] [%END%] [%IF has_operon and operon_genes.$gid%] [%UNLESS gene_id_type == dflt_gene_id_type%] [%FOREACH input_gene = operon_genes.$gid%] [%input_gid = input_gene.id%] [%gene_ids = gid_gene_ids.$input_gid%] [%END%] [%END%] [%ELSE%] [%UNLESS gene_id_type == dflt_gene_id_type%] [%gene_ids = gid_gene_ids.$gid%] [%END%] [%END%] [%IF has_operon%] [%IF gene.operon%] [%ELSE%] [%END%] [%END%] [%first = 1%] [%FOREACH site = gid_cluster_tfbss.$gid%] [%site_start = gene.start + site.start - 1%] [%site_end = gene.start + site.end - 1%] [%closest_tss = gene.tss%] [%min_tss_dist = 999999%] [%FOREACH promoter = promoters%] [%tss = promoter.tss()%] [%start_tss_dist = site_start - tss%] [%end_tss_dist = site_end - tss%] [%IF start_tss_dist < 0%] [%start_tss_dist = start_tss_dist * -1%] [%END%] [%IF end_tss_dist < 0%] [%end_tss_dist = end_tss_dist * -1%] [%END%] [%IF start_tss_dist < min_tss_dist%] [%min_tss_dist = start_tss_dist%] [%closest_tss = tss%] [%END%] [%IF end_tss_dist < min_tss_dist%] [%min_tss_dist = end_tss_dist%] [%closest_tss = tss%] [%END%] [%END%] [%IF gene.strand == 1%] [%rel_start = site_start - closest_tss%] [%IF site_start >= closest_tss%] [%rel_start = rel_start + 1%] [%END%] [%rel_end = site_end - closest_tss%] [%IF site_end >= closest_tss%] [%rel_end = rel_end + 1%] [%END%] [%ELSE%] [%rel_start = closest_tss - site_start%] [%IF site_start <= closest_tss%] [%rel_start = rel_start + 1%] [%END%] [%rel_end = closest_tss - site_end%] [%IF site_end <= closest_tss%] [%rel_end = rel_end + 1%] [%END%] [%temp = rel_end%] [%rel_end = rel_start%] [%rel_start = temp%] [%END%] [%UNLESS first == 1%] [%IF has_operon%] [%END%] [%UNLESS gene_id_type == dflt_gene_id_type%] [%END%] [%END%] [%first = 0%] [%END%] [%END%]
Gene ID(s)Ensembl IDOperon IDChr Gene Start Gene End Strand TFBS Cluster Start TFBS Cluster End Nearest TSS TFBS Cluster Rel. Start TFBS Cluster Rel. End TFBS Cluster Strand %Score TFBS Cluster Sequence
[%FOREACH gene_id = gene_ids%][%gene_id%] [%END%] [%FOREACH input_gene = operon_genes.$gid%] [%input_gene.ensembl_id%]  [%END%] [%FOREACH gene_id = gene_ids%][%gene_id%] [%END%] [%gene.ensembl_id%][%gene.operon.symbol%]-[%gene.chr%] [%prom_start%] [%prom_end%] [%IF gene.strand == 1%]+[%ELSE%]-[%END%]
[%site_start%] [%site_end%] [%closest_tss%] [%rel_start%] [%rel_end%] [%IF site.strand() == 1%]+[%ELSE%]-[%END%] [%formatf(1, site.rel_score() * 100)%]% [%site.seq()%]

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