; parse-gtf  -v 2 -i $RSAT/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.gtf -fasta $RSAT/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.dna.toplevel.fa -fasta_rm $RSAT/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.dna_rm.genome.fa -fasta_pep $RSAT/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.pep.all.fa -org_name Oryza_rufipogon.OR_W1943.40 -task all -taxid 4529 -gtf_source ensemblgenomes -o $RSAT/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome
; Program version       	1.48
; Input files
;	fasta_rm     	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.dna_rm.genome.fa
;	gtf          	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.gtf
;	fasta        	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.dna.toplevel.fa
;	fasta_pep    	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.pep.all.fa
; Output files
;	peptidic_sequences	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/peptidic_sequences.fasta
;	contigs_txt_rm	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/contigs_rm.txt
;	tts_gtf      	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_tts.gtf
;	gene_gtf     	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_gene.gtf
;	contig_rm    	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/contig_rm.tab
;	gene         	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/gene.tab
;	stop_codon_gtf	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_stop_codon.gtf
;	transcript   	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/transcript.tab
;	gene_start_gtf	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_gene_start.gtf
;	gene_end_gtf 	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_gene_end.gtf
;	cds          	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/cds.tab
;	three_prime_utr_gtf	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_three_prime_utr.gtf
;	log          	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/log.txt
;	exon         	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/exon.tab
;	organism     	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/organism.tab
;	contig       	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/contig.tab
;	tss_gtf      	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_tss.gtf
;	stop_codon   	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/stop_codon.tab
;	start_codon_gtf	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_start_codon.gtf
;	five_prime_utr_gtf	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_five_prime_utr.gtf
;	transcript_gtf	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_transcript.gtf
;	fasta_lengths	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.dna.toplevel_lengths.tab
;	start_codon  	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/start_codon.tab
;	contigs_txt  	/var/www/html/rsat/public_html/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/contigs.txt
;	fasta_pep_lengths	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.pep.all_lengths.tab
;	fasta_rm_lengths	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40.dna_rm.genome_lengths.tab
;	exon_gtf     	/var/www/html/rsat/data/genomes/Oryza_rufipogon.OR_W1943.40/genome/Oryza_rufipogon.OR_W1943.40_exon.gtf
; Parsed rows per feature type
;	cds          	265427
;	exon         	281905
;	five_prime_utr	21364
;	gene         	40584
;	start_codon  	47322
;	stop_codon   	47258
;	three_prime_utr	22788
;	transcript   	51004
; Parsed rows per contig
;	Contig       	Total	cds	exon	five_prime_utr	gene	start	stop	three_prime_utr	transcript
;	1            	106669	36617	38955	3080	5287	6352	6366	3247	6765
;	10           	41565	13919	14785	1146	2338	2637	2631	1224	2885
;	11           	52769	17849	18996	1447	2888	3296	3273	1387	3633
;	12           	45245	15040	16205	1295	2503	2860	2846	1368	3128
;	2            	91698	32021	33945	2558	4365	5254	5246	2680	5629
;	3            	93791	32404	34215	2544	4772	5554	5554	2753	5995
;	4            	69576	23985	25418	1743	3552	4194	4185	1980	4519
;	5            	63242	21565	22928	1822	3255	3839	3844	1882	4107
;	6            	60567	20782	21876	1479	3258	3741	3733	1679	4019
;	7            	58455	19910	21167	1593	3071	3557	3550	1782	3825
;	8            	51440	16993	18216	1535	2921	3297	3296	1609	3573
;	9            	42635	14342	15199	1122	2374	2741	2734	1197	2926
; Host name	baobab.eead.csic.es
; Job started	2018-09-22.231832
; Job done	2018-09-23.035207
; Seconds	79.68
;	user	79.68
;	system	18.78
;	cuser	16160.02
;	csystem	197.98