; parse-gtf  -v 2 -i $RSAT/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.gtf -fasta $RSAT/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.dna.toplevel.fa -fasta_rm $RSAT/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.dna_rm.genome.fa -fasta_pep $RSAT/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.pep.all.fa -org_name Lathyrus_sativus.JIC_Lsat_v2.1.1.60 -task all -taxid 3860 -gtf_source ensemblgenomes -o $RSAT/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome
; Program version       	1.48
; Input files
;	fasta_rm     	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.dna_rm.genome.fa
;	gtf          	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.gtf
;	fasta_pep    	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.pep.all.fa
;	fasta        	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.dna.toplevel.fa
; Output files
;	tss_gtf      	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_tss.gtf
;	exon         	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/exon.tab
;	tts_gtf      	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_tts.gtf
;	gene_start_gtf	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_gene_start.gtf
;	start_codon  	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/start_codon.tab
;	log          	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/log.txt
;	gene_end_gtf 	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_gene_end.gtf
;	gene         	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/gene.tab
;	five_prime_utr_gtf	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_five_prime_utr.gtf
;	exon_gtf     	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_exon.gtf
;	contig_rm    	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/contig_rm.tab
;	three_prime_utr_gtf	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_three_prime_utr.gtf
;	transcript_gtf	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_transcript.gtf
;	organism     	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/organism.tab
;	stop_codon   	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/stop_codon.tab
;	contig       	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/contig.tab
;	contigs_txt_rm	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/contigs_rm.txt
;	fasta_lengths	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.dna.toplevel_lengths.tab
;	cds          	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/cds.tab
;	peptidic_sequences	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/peptidic_sequences.fasta
;	stop_codon_gtf	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_stop_codon.gtf
;	start_codon_gtf	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_start_codon.gtf
;	gene_gtf     	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60_gene.gtf
;	transcript   	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/transcript.tab
;	fasta_pep_lengths	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.pep.all_lengths.tab
;	contigs_txt  	/var/www/html/rsat/public_html/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/contigs.txt
;	fasta_rm_lengths	/var/www/html/rsat/data/genomes/Lathyrus_sativus.JIC_Lsat_v2.1.1.60/genome/Lathyrus_sativus.JIC_Lsat_v2.1.1.60.dna_rm.genome_lengths.tab
; Parsed rows per feature type
;	cds          	160599
;	exon         	160631
;	five_prime_utr	3
;	gene         	31719
;	start_codon  	34813
;	stop_codon   	34816
;	transcript   	34800
; Parsed rows per contig
;	Contig       	Total	cds	exon	five_prime_utr	gene	start	stop	transcript
;	OZ012735.1   	82867	28751	28755	1	5936	6476	6474	6474
;	OZ012736.1   	50906	17879	17883	0	3521	3874	3875	3874
;	OZ012737.1   	57654	19905	19908	0	4183	4554	4553	4551
;	OZ012738.1   	63020	22404	22409	0	4221	4661	4664	4661
;	OZ012739.1   	64885	22955	22960	0	4410	4855	4854	4851
;	OZ012740.1   	69106	24711	24715	1	4535	5050	5048	5046
;	OZ012741.1   	68943	23994	24001	1	4913	5343	5348	5343
; Host name	baobab
; Job started	2024-11-28.135930
; Job done	2024-11-28.145659
; Seconds	328.19
;	user	328.19
;	system	55.94
;	cuser	3904.73
;	csystem	269.02