; parse-gtf -v 2 -i $RSAT/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.gtf -fasta $RSAT/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.dna.toplevel.fa -fasta_rm $RSAT/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.dna_rm.genome.fa -fasta_pep $RSAT/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.pep.all.fa -org_name Trypanosoma_brucei.TryBru_Apr2005_chr11.34 -task all -taxid 5691 -gtf_source ensemblgenomes -o $RSAT/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome ; Program version 1.48 ; Input files ; gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.gtf ; fasta /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.dna.toplevel.fa ; fasta_pep /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.pep.all.fa ; fasta_rm /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.dna_rm.genome.fa ; Output files ; contig /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/contig.tab ; fasta_pep_lengths /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.pep.all_lengths.tab ; tts_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_tts.gtf ; stop_codon /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/stop_codon.tab ; exon_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_exon.gtf ; five_prime_utr_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_five_prime_utr.gtf ; cds /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/cds.tab ; log /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/log.txt ; start_codon /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/start_codon.tab ; contig_rm /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/contig_rm.tab ; start_codon_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_start_codon.gtf ; transcript_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_transcript.gtf ; gene /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/gene.tab ; contigs_txt_rm /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/contigs_rm.txt ; peptidic_sequences /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/peptidic_sequences.fasta ; fasta_rm_lengths /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.dna_rm.genome_lengths.tab ; fasta_lengths /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34.dna.toplevel_lengths.tab ; gene_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_gene.gtf ; gene_start_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_gene_start.gtf ; organism /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/organism.tab ; gene_end_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_gene_end.gtf ; transcript /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/transcript.tab ; tss_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_tss.gtf ; three_prime_utr_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_three_prime_utr.gtf ; exon /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/exon.tab ; contigs_txt /export/home1/rsat/rsat/public_html/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/contigs.txt ; stop_codon_gtf /export/home1/rsat/rsat/data/genomes/Trypanosoma_brucei.TryBru_Apr2005_chr11.34/genome/Trypanosoma_brucei.TryBru_Apr2005_chr11.34_stop_codon.gtf ; Parsed rows per feature type ; cds 8749 ; exon 9458 ; five_prime_utr 2 ; gene 9456 ; start_codon 8743 ; stop_codon 8743 ; transcript 9456 ; Parsed rows per contig ; Contig Total cds exon five_prime_utr gene start stop transcript ; 1 3087 496 533 0 533 496 496 533 ; 10 9633 1538 1673 0 1673 1538 1538 1673 ; 11 10401 1693 1775 2 1775 1691 1690 1775 ; 2 1806 285 317 0 317 285 285 317 ; 3 3320 528 580 0 579 527 527 579 ; 4 3210 528 542 0 542 528 528 542 ; 5 2697 447 452 0 452 447 447 452 ; 6 3177 496 563 0 563 496 496 563 ; 7 4481 736 758 0 758 735 736 758 ; 8 4948 778 873 0 872 777 776 872 ; 9 7847 1224 1392 0 1392 1223 1224 1392 ; Host name rsat01 ; Job started 2017-02-27.073939 ; Job done 2017-02-27.074757 ; Seconds 3.27 ; user 3.27 ; system 0.25 ; cuser 485.88 ; csystem 13.63