rsync -ruptl /var/www/html/rsat/perl-scripts/lib/js /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF
rsync -ruptl /var/www/html/rsat/public_html/images/program_icons/matrix-clustering_icons /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_query_matrices.meme -from meme -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed_1.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed_1.tf -from tf -to transfac -prefix_id Collection_1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed.tf > /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -split -from tf -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/motif
cat /var/www/html/rsat/R-scripts/matrix-clustering.R | /usr/bin/R --slave --no-save --no-restore --no-environ --args " infile = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa.tab'; hclust.method = 'average'; description.file = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab'; distance.table = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/distance_table.tab'; alignment.file = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/alignment_table.tab'; verbosity = 0; metric = 'Ncor'; heatmap.color.palette = 'YlOrRd'; heatmap.color.classes = '9'; export.newick = 0; radial.only = 0; draw.heatmap = 1; draw.consensus = 0; pos.hclust.in.heatmap = 'column'; lthsp = 'cor_0.6_Ncor_0.5_'; out.prefix = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering'; "
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_1_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_1_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_2_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_2_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_3_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_3_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_4_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_4_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_5_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_5_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_6_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_6_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_7_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_7_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_8_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_8_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_9_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_9_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_10_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_10_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_11_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_11_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_12_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_12_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_13_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_13_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_14_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_14_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_15_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_15_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_16_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_16_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_17_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_17_transfac_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m21_SRSYRKVTFK_HTCS_Man-1_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m5_SSWRKTEHFS_RhaR_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m18_GTVYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m4_GTVYKPYYSK_HTCS_Rgu-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m24_GTVYKPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m18_GTVYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m4_GTVYKPYYSK_HTCS_Rgu-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_cat.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m2_GSIYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m24_GTVYKPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m18_GTVYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m4_GTVYKPYYSK_HTCS_Rgu-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_cat.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf -from tf -to tf -attr name cluster_10 -attr accession cluster_10 -set_attr merged_AC 'Collection_1:::SRSYRKVTFK_HTCS_Man-1_3' -set_attr merged_ID 'SRSYRKVTFK_HTCS_Man-1_3' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf -from tf -to tf -attr name cluster_11 -attr accession cluster_11 -set_attr merged_AC 'Collection_1:::SSWRKTEHFS_RhaR' -set_attr merged_ID 'SSWRKTEHFS_RhaR' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135205_WAv6sN
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135205_jqe4ml
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135205_4VUb3I
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m22_SASYTISYST_HTCS_Ogl-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m9_SSSYRPKYAT_HTCS_Aga-1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf -from tf -to tf -attr name cluster_12 -attr accession cluster_12 -set_attr merged_AC 'Collection_1:::SASYTISYST_HTCS_Ogl-2' -set_attr merged_ID 'SASYTISYST_HTCS_Ogl-2' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf -from tf -to tf -attr name cluster_13 -attr accession cluster_13 -set_attr merged_AC 'Collection_1:::SSSYRPKYAT_HTCS_Aga-1' -set_attr merged_ID 'SSSYRPKYAT_HTCS_Aga-1' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m23_SRVRQSNYSV_RhaR_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m15_SSTYRTVYRQ_HTCS_Ara-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m25_SKQYRHSYSK_HTCS_Pga_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf -from tf -to tf -attr name cluster_15 -attr accession cluster_15 -set_attr merged_AC 'Collection_1:::SSTYRTVYRQ_HTCS_Ara-2' -set_attr merged_ID 'SSTYRTVYRQ_HTCS_Ara-2' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf -from tf -to tf -attr name cluster_14 -attr accession cluster_14 -set_attr merged_AC 'Collection_1:::SRVRQSNYSV_RhaR' -set_attr merged_ID 'SRVRQSNYSV_RhaR' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf -from tf -to tf -attr name cluster_16 -attr accession cluster_16 -set_attr merged_AC 'Collection_1:::SKQYRHSYSK_HTCS_Pga' -set_attr merged_ID 'SKQYRHSYSK_HTCS_Pga' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m17_SYHHRTSYIT_AdaA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m10_SVQYRPSYAK_HTCS_Fru_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m20_SVQYRPSYTK_HTCS_Fru_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_cat.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m13_SSLNKPKYAR_HTCS_Ara-1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m16_SSLNKPKYTR_HTCS_Ara-1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_cat.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf -from tf -to tf -attr name cluster_17 -attr accession cluster_17 -set_attr merged_AC 'Collection_1:::SYHHRTSYIT_AdaA' -set_attr merged_ID 'SYHHRTSYIT_AdaA' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_3 -name cluster_3 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135208_GWH6vo
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135208_xUEFLS
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m8_GVQYRPSYTR_HTCS_Fru_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m10_SVQYRPSYAK_HTCS_Fru_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m20_SVQYRPSYTK_HTCS_Fru_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_cat.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m19_PRTHRSNHST_RhaS_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m27_PRTNRSNYSS_RhaS_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_cat.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_4 -name cluster_4 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135209_5Si3yc
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135209_kpvRkl
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m1_SSNHLSSYAT_HTCS_Hep_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m6_SSNHLPSYAT_HTCS_Hep_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_5 -name cluster_5 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135210_lE0H4m
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m12_SSRSHQLYSR_AraC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m14_SSRAHQLYSR_AraC_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_cat.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m26_SSVFKPRYSK_HTCS_Rgu-1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m28_SSTYRTGYRQ_HTCS_Ara-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_6 -name cluster_6 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_7 -name cluster_7 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135211_NEhn36
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135211_N1KlZd
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m3_SSTYRSVYRQ_HTCS_Ara-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m7_ATNFTSRYSK_HTCS_Hya_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_cat.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_8 -name cluster_8 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135212_XvD6fh
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m11_SRQYRRGTYK_HTCS_Man-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices_temp.tf -from tf -to tf -attr name cluster_9 -attr accession cluster_9 -set_attr merged_AC 'Collection_1:::SRQYRRGTYK_HTCS_Man-2' -set_attr merged_ID 'SRQYRRGTYK_HTCS_Man-2' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
rm -r /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_pairwise_compa_logos
cp /var/www/html/rsat/public_html/templates_html/display_d3_tree.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_logo_tree.html
cp /var/www/html/rsat/public_html/templates_html/display_small_d3_tree.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_portable_logo_tree.html
mv /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_logo_tree.html
mv /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_portable_logo_tree.html
/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_html/pairwise_compa_matrix_descriptions.html
/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/distance_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/distance_table.html
/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/alignment_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/alignment_table.html
/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters.html
/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_motif_names.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_motif_names.html
mv -f /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_portable_logo_tree.html
; matrix-clustering -v 1 -max_matrices 300 -matrix Collection_1 $RSAT/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_query_matrices.meme meme -hclust_method average -calc sum -title arac -metric_build_tree Ncor -lth w 10 -lth cor 0.6 -lth Ncor 0.5 -quick -label_in_tree name -return json,heatmap -o $RSAT/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering
; Program version 1.05
; Number of matrices 28
; Output files
; clusters_table_motif_names_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_motif_names.html
; motif_richness_barplot_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_motif_richness_barplot.html
; int_align /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/intermediate_alignments.tab
; distance_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/distance_table.tab
; ref_collection_tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_reference_collection.tf
; radial_tree /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_radial_tree.html
; dynamic_heatmap_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_dynamic_heatmap.html
; clusters_table_motif_names /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_motif_names.tab
; err_log /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_errors.txt
; alignment_table_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/alignment_table.html
; consensus_cladogram_json /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_trees/tree.json
; log /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_log.txt
; alignment_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/alignment_table.tab
; cluster_IDs_names /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_cluster_IDs.txt
; dynamic_coverage_heatmap_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_dynamic_coverage_heatmap.html
; clusters_table_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters.html
; summary /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_SUMMARY.html
; root_motifs /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_cluster_root_motifs.tf
; reference_compa_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_html/Root_vs_reference_collection_compa.html
; heatmap_pdf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_figures/heatmap.pdf
; reference_compa /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/Root_vs_reference_collection_compa.tab
; Rlog /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_Rlog.txt
; coverage_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_summary_coverage_contingency_table.tab
; nb_clusters_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/number_of_clusters.tab
; matrix_descriptions /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab
; pairwise_compa /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa.tab
; temp_html_3 /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary_3.html
; motif_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf
; prefix /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering
; central_motifs_tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_central_motifs_transfac.tf
; small_forest_export /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_small_forest.html
; html_index /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_html/index.html
; heatmap_collections_d3 /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/collection_heatmap_tab.tsv
; distance_table_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/distance_table.html
; hexa_colors /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_hexa_colors.txt
; archive /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_archive.zip
; all_concatenated_motifs /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
; matrix_descriptions_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_html/pairwise_compa_matrix_descriptions.html
; motif_richness_tsv /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_motif_richness.tsv
; radial_tree_template /var/www/html/rsat/public_html/templates_html/Radial_tree_template.html
; coverage_json_folder /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_coverage_json
; temp_html_2 /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary_2.html
; small_logo_cladogram_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_portable_logo_tree.html
; percent_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_summary_percent_table.tab
; clusters_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters.tab
; heatmap_coverage_attributes /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/convergency_heatmap_attributes.tab
; input_matrices /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf
; pairwise_compa_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_html/pairwise_compa.html
; logo_cladogram_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_logo_tree.html
; internal_nodes_attributes_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/internal_nodes_attributes.tab
; central_motifs_IDs_temp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_central_motifs_IDs_temporal.tab
; heatmap_coverage_d3 /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/convergency_heatmap_tab.tsv
; summary_temp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_SUMMARY_TEMP.html
; heatmap_collections_attributes /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/collection_heatmap_order.tab
; temp_html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary.html
; root_motifs_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_root_motifs_table.tab
; central_motifs /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_central_motifs_IDs.tab
; heatmap_jpg /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_figures/heatmap.jpg
; cluster_summary_table /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_summary_table.tab
; Directories
; data /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data
; output /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF
; Host name rsat
; Job started 2026-01-20.135154
; Job done 2026-01-20.135216
; Seconds 0.8
; user 0.8
; system 0.41
; cuser 26.57
; csystem 7.4