; parse-gtf -v 2 -i $RSAT/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.gtf -fasta $RSAT/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.dna.toplevel.fa -fasta_rm $RSAT/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.dna_rm.genome.fa -fasta_pep $RSAT/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.pep.all.fa -org_name Dictyostelium_discoideum.dicty_2.7.34 -task all -taxid 352472 -gtf_source ensemblgenomes -o $RSAT/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome ; Program version 1.48 ; Input files ; fasta /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.dna.toplevel.fa ; fasta_pep /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.pep.all.fa ; gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.gtf ; fasta_rm /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.dna_rm.genome.fa ; Output files ; contigs_txt_rm /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/contigs_rm.txt ; tts_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_tts.gtf ; start_codon /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/start_codon.tab ; log /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/log.txt ; contig_rm /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/contig_rm.tab ; organism /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/organism.tab ; start_codon_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_start_codon.gtf ; stop_codon_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_stop_codon.gtf ; cds /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/cds.tab ; exon /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/exon.tab ; fasta_pep_lengths /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.pep.all_lengths.tab ; gene_start_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_gene_start.gtf ; tss_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_tss.gtf ; fasta_lengths /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.dna.toplevel_lengths.tab ; gene_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_gene.gtf ; contig /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/contig.tab ; exon_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_exon.gtf ; fasta_rm_lengths /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34.dna_rm.genome_lengths.tab ; transcript /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/transcript.tab ; contigs_txt /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/contigs.txt ; gene_end_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_gene_end.gtf ; three_prime_utr_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_three_prime_utr.gtf ; peptidic_sequences /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/peptidic_sequences.fasta ; transcript_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_transcript.gtf ; stop_codon /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/stop_codon.tab ; gene /export/home1/rsat/rsat/public_html/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/gene.tab ; five_prime_utr_gtf /export/home1/rsat/rsat/data/genomes/Dictyostelium_discoideum.dicty_2.7.34/genome/Dictyostelium_discoideum.dicty_2.7.34_five_prime_utr.gtf ; Parsed rows per feature type ; cds 30087 ; exon 30573 ; five_prime_utr 60 ; gene 13729 ; start_codon 13174 ; stop_codon 13143 ; transcript 13753 ; Parsed rows per contig ; Contig Total cds exon five_prime_utr gene start stop transcript ; 1 16572 4310 4398 2 2006 1926 1917 2013 ; 2 28221 7394 7500 4 3385 3281 3266 3391 ; 3 21532 5684 5777 7 2565 2466 2463 2570 ; 4 18224 4828 4886 12 2160 2089 2086 2163 ; 5 17001 4527 4574 14 2005 1938 1937 2006 ; 6 12082 3137 3228 7 1481 1371 1375 1483 ; CH709148 82 16 16 0 13 13 11 13 ; CH709149 6 1 1 0 1 1 1 1 ; CH709150 11 2 2 0 2 2 1 2 ; CH709151 18 4 4 0 3 3 1 3 ; CH709152 23 4 4 0 4 4 3 4 ; CH709153 64 17 17 0 8 7 7 8 ; CH709154 16 4 4 2 2 0 2 2 ; CH709155 22 4 4 0 4 4 2 4 ; CH709156 31 6 6 0 5 5 4 5 ; CH709157 25 5 5 1 4 3 3 4 ; CH709158 37 7 8 1 6 4 5 6 ; CH709159 14 4 4 0 2 2 0 2 ; CH709160 52 11 11 0 8 7 7 8 ; CH709161 64 16 16 0 8 8 8 8 ; CH709162 16 4 4 2 2 0 2 2 ; CH709164 20 6 6 2 2 0 2 2 ; CH709166 4 1 1 0 1 0 0 1 ; CH709167 26 6 6 2 4 1 3 4 ; CH709168 35 10 10 0 4 4 3 4 ; CH709169 30 8 8 0 4 4 2 4 ; CH709170 38 9 9 1 5 4 5 5 ; CH709171 29 8 8 0 4 3 2 4 ; CH709172 11 2 2 0 2 2 1 2 ; CH709174 23 6 6 0 3 3 2 3 ; CH709175 43 12 12 1 5 4 4 5 ; CH709177 11 2 2 0 2 1 2 2 ; CH709178 13 3 3 0 2 2 1 2 ; CH709179 19 4 4 0 3 2 3 3 ; CH709180 14 3 3 0 2 2 2 2 ; CH709181 18 4 6 0 3 1 1 3 ; CH709182 72 18 18 2 9 7 9 9 ; Host name rsat01 ; Job started 2017-02-27.014019 ; Job done 2017-02-27.015114 ; Seconds 6.3 ; user 6.3 ; system 0.29 ; cuser 638 ; csystem 16.46