; parse-gtf -v 2 -i $RSAT/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.gtf -fasta $RSAT/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.dna.toplevel.fa -fasta_rm $RSAT/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.dna_rm.genome.fa -fasta_pep $RSAT/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.pep.all.fa -org_name Castanea_sativa_Marrone.GCF040712315.1.RefSeq -task all -taxid 21020 -gtf_source RefSeq -o $RSAT/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome ; Program version 1.48 ; Input files ; gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.gtf ; fasta_rm /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.dna_rm.genome.fa ; fasta_pep /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.pep.all.fa ; fasta /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.dna.toplevel.fa ; Output files ; fasta_pep_lengths /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.pep.all_lengths.tab ; cds /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/cds.tab ; fasta_rm_lengths /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.dna_rm.genome_lengths.tab ; gene_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_gene.gtf ; exon /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/exon.tab ; gene_end_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_gene_end.gtf ; fasta_lengths /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq.dna.toplevel_lengths.tab ; transcript /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/transcript.tab ; stop_codon_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_stop_codon.gtf ; three_prime_utr_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_three_prime_utr.gtf ; log /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/log.txt ; peptidic_sequences /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/peptidic_sequences.fasta ; contig_rm /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/contig_rm.tab ; contig /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/contig.tab ; tts_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_tts.gtf ; organism /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/organism.tab ; tss_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_tss.gtf ; contigs_txt /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/contigs.txt ; contigs_txt_rm /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/contigs_rm.txt ; stop_codon /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/stop_codon.tab ; transcript_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_transcript.gtf ; exon_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_exon.gtf ; gene /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/gene.tab ; gene_start_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_gene_start.gtf ; five_prime_utr_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_five_prime_utr.gtf ; start_codon /var/www/html/rsat/public_html/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/start_codon.tab ; start_codon_gtf /var/www/html/rsat/data/genomes/Castanea_sativa_Marrone.GCF040712315.1.RefSeq/genome/Castanea_sativa_Marrone.GCF040712315.1.RefSeq_start_codon.gtf ; Parsed rows per feature type ; 28 ; cdna_match 553 ; cds 233223 ; exon 319233 ; gene 35003 ; lnc_rna 4039 ; mrna 42663 ; pseudogene 4591 ; region 13 ; rrna 256 ; snorna 415 ; snrna 129 ; transcript 2152 ; trna 592 ; Parsed rows per contig ; Contig Total cdna_match cds exon gene lnc_rna mrna pseudogene region rrna snorna snrna transcript trna ; ### 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##gff-version 3 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_054204.1 1 160938 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134013.1 1 91963648 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134014.1 1 55387489 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134015.1 1 59921945 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134016.1 1 51740884 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134017.1 1 81892547 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134018.1 1 62754968 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134019.1 1 47783066 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134020.1 1 56333209 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134021.1 1 46215311 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134022.1 1 40417511 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134023.1 1 71088366 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##sequence-region NC_134024.1 1 50370062 1 1 0 0 0 0 0 0 0 0 0 0 0 0 0 ; ##species https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=21020 13 13 0 0 0 0 0 0 0 0 0 0 0 0 0 ; NC_054204.1 518 0 0 102 155 130 0 83 2 1 8 0 0 0 37 ; NC_134013.1 90642 0 99 34961 43349 4903 410 6063 458 1 2 67 5 239 85 ; NC_134014.1 53601 0 25 20222 26059 2907 283 3529 309 1 0 38 32 147 49 ; NC_134015.1 53932 0 40 19523 26968 2873 388 3479 352 1 0 35 28 200 45 ; NC_134016.1 46409 0 9 16339 23653 2437 361 3044 323 1 0 22 7 187 26 ; NC_134017.1 62672 0 54 22168 31268 3610 559 3942 536 1 202 37 6 244 45 ; NC_134018.1 56414 0 91 20727 27309 3269 309 3976 417 1 3 60 17 169 66 ; NC_134019.1 41213 0 20 14425 20806 2270 281 2818 395 1 4 13 16 129 35 ; NC_134020.1 45332 0 45 16812 22251 2456 229 2998 307 1 12 24 1 145 51 ; NC_134021.1 44910 0 26 16237 22535 2354 286 2959 299 1 0 23 7 141 42 ; NC_134022.1 43989 0 38 16939 21078 2386 178 2956 214 1 1 30 2 122 44 ; NC_134023.1 55382 0 99 17478 29942 2886 465 3661 544 1 23 34 2 212 35 ; NC_134024.1 47848 0 7 17290 23860 2522 290 3155 435 1 1 32 6 217 32 ; Host name baobab ; Job started 2025-11-19.225927 ; Job done 2025-11-19.233623 ; Seconds 61.24 ; user 61.25 ; system 5.99 ; cuser 3278.48 ; csystem 164.42