; parse-gtf -v 2 -i $RSAT/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.gtf -fasta $RSAT/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.dna.toplevel.fa -fasta_rm $RSAT/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.dna_rm.genome.fa -fasta_pep $RSAT/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.pep.all.fa -org_name Medicago_truncatula.MtrunA17r50ANR.60 -task all -taxid 3880 -gtf_source ensemblgenomes -o $RSAT/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome ; Program version 1.48 ; Input files ; fasta /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.dna.toplevel.fa ; gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.gtf ; fasta_rm /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.dna_rm.genome.fa ; fasta_pep /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.pep.all.fa ; Output files ; exon_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_exon.gtf ; contigs_txt /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/contigs.txt ; tss_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_tss.gtf ; log /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/log.txt ; gene_start_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_gene_start.gtf ; gene /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/gene.tab ; contigs_txt_rm /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/contigs_rm.txt ; contig_rm /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/contig_rm.tab ; fasta_pep_lengths /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.pep.all_lengths.tab ; five_prime_utr_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_five_prime_utr.gtf ; start_codon /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/start_codon.tab ; three_prime_utr_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_three_prime_utr.gtf ; gene_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_gene.gtf ; fasta_lengths /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.dna.toplevel_lengths.tab ; transcript_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_transcript.gtf ; transcript /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/transcript.tab ; tts_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_tts.gtf ; exon /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/exon.tab ; contig /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/contig.tab ; organism /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/organism.tab ; gene_end_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_gene_end.gtf ; cds /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/cds.tab ; fasta_rm_lengths /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60.dna_rm.genome_lengths.tab ; stop_codon_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_stop_codon.gtf ; stop_codon /var/www/html/rsat/public_html/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/stop_codon.tab ; start_codon_gtf /var/www/html/rsat/data/genomes/Medicago_truncatula.MtrunA17r50ANR.60/genome/Medicago_truncatula.MtrunA17r50ANR.60_start_codon.gtf ; Parsed rows per feature type ; cds 174217 ; exon 194395 ; five_prime_utr 37651 ; gene 50739 ; start_codon 44450 ; stop_codon 44450 ; three_prime_utr 35860 ; transcript 50739 ; Parsed rows per contig ; Contig Total cds exon five_prime_utr gene start stop three_prime_utr transcript ; CM010648.1 91016 25729 28429 5375 7018 6191 6191 5065 7018 ; CM010649.1 74706 20785 23076 4390 5966 5217 5217 4089 5966 ; CM010650.1 89158 24418 27378 5461 7101 6244 6244 5211 7101 ; CM010651.1 100676 27919 31078 6044 7955 6957 6957 5811 7955 ; CM010652.1 70383 19198 21482 4142 5753 5019 5019 4017 5753 ; CM010653.1 46071 11749 13532 2727 4135 3562 3562 2669 4135 ; CM010654.1 79374 21591 24138 4732 6501 5693 5693 4525 6501 ; CM010655.1 79073 22321 24688 4681 6098 5409 5409 4369 6098 ; PSQE01000009.1 665 159 194 26 75 53 53 30 75 ; PSQE01000010.1 194 49 62 8 21 13 13 7 21 ; PSQE01000011.1 178 28 40 12 27 16 16 12 27 ; PSQE01000012.1 101 20 23 4 13 11 11 6 13 ; PSQE01000013.1 62 18 20 2 6 4 4 2 6 ; PSQE01000014.1 32 10 14 1 2 1 1 1 2 ; PSQE01000015.1 84 23 25 2 9 7 7 2 9 ; PSQE01000016.1 19 2 4 1 3 2 2 2 3 ; PSQE01000017.1 3 0 1 0 1 0 0 0 1 ; PSQE01000018.1 88 31 32 5 4 4 4 4 4 ; PSQE01000019.1 21 4 5 3 2 2 2 1 2 ; PSQE01000020.1 7 1 1 0 1 1 1 1 1 ; PSQE01000021.1 8 1 1 1 1 1 1 1 1 ; PSQE01000022.1 18 3 3 0 3 3 3 0 3 ; PSQE01000023.1 88 31 32 3 5 4 4 4 5 ; PSQE01000024.1 94 34 35 5 4 4 4 4 4 ; PSQE01000025.1 48 11 12 4 4 4 4 5 4 ; PSQE01000026.1 46 11 11 4 4 4 4 4 4 ; PSQE01000027.1 41 6 8 5 5 4 4 4 5 ; PSQE01000028.1 68 14 15 6 8 7 7 3 8 ; PSQE01000029.1 79 27 27 2 5 5 5 3 5 ; PSQE01000030.1 64 18 22 2 5 4 4 4 5 ; PSQE01000031.1 36 6 7 3 4 4 4 4 4 ; Host name baobab ; Job started 2024-12-10.131608 ; Job done 2024-12-10.135435 ; Seconds 53.07 ; user 53.07 ; system 4.66 ; cuser 3609.73 ; csystem 184.48