agat_sp_extract_sequences.pl -g Zm-B73-REFERENCE-NAM-5.0_Zm00001e.1-fixed-start-stop.gff -f ../genomes/Zm-B73-REFERENCE-NAM-5.0.fasta  -o Zm-B73-REFERENCE-NAM-5.0_Zm00001e.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-B97-REFERENCE-NAM-1.0_Zm00018a.1-fixed-start-stop.gff -f ../genomes/Zm-B97-REFERENCE-NAM-1.0.fasta  -o Zm-B97-REFERENCE-NAM-1.0_Zm00018a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML103-REFERENCE-NAM-1.0_Zm00021a.1-fixed-start-stop.gff -f ../genomes/Zm-CML103-REFERENCE-NAM-1.0.fasta  -o Zm-CML103-REFERENCE-NAM-1.0_Zm00021a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML228-REFERENCE-NAM-1.0_Zm00022a.1-fixed-start-stop.gff -f ../genomes/Zm-CML228-REFERENCE-NAM-1.0.fasta  -o Zm-CML228-REFERENCE-NAM-1.0_Zm00022a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML247-REFERENCE-NAM-1.0_Zm00023a.1-fixed-start-stop.gff -f ../genomes/Zm-CML247-REFERENCE-NAM-1.0.fasta  -o Zm-CML247-REFERENCE-NAM-1.0_Zm00023a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML277-REFERENCE-NAM-1.0_Zm00024a.1-fixed-start-stop.gff -f ../genomes/Zm-CML277-REFERENCE-NAM-1.0.fasta  -o Zm-CML277-REFERENCE-NAM-1.0_Zm00024a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML322-REFERENCE-NAM-1.0_Zm00025a.1-fixed-start-stop.gff -f ../genomes/Zm-CML322-REFERENCE-NAM-1.0.fasta  -o Zm-CML322-REFERENCE-NAM-1.0_Zm00025a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML333-REFERENCE-NAM-1.0_Zm00026a.1-fixed-start-stop.gff -f ../genomes/Zm-CML333-REFERENCE-NAM-1.0.fasta  -o Zm-CML333-REFERENCE-NAM-1.0_Zm00026a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML52-REFERENCE-NAM-1.0_Zm00019a.1-fixed-start-stop.gff -f ../genomes/Zm-CML52-REFERENCE-NAM-1.0.fasta  -o Zm-CML52-REFERENCE-NAM-1.0_Zm00019a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-CML69-REFERENCE-NAM-1.0_Zm00020a.1-fixed-start-stop.gff -f ../genomes/Zm-CML69-REFERENCE-NAM-1.0.fasta  -o Zm-CML69-REFERENCE-NAM-1.0_Zm00020a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-HP301-REFERENCE-NAM-1.0_Zm00027a.1-fixed-start-stop.gff -f ../genomes/Zm-HP301-REFERENCE-NAM-1.0.fasta  -o Zm-HP301-REFERENCE-NAM-1.0_Zm00027a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Il14H-REFERENCE-NAM-1.0_Zm00028a.1-fixed-start-stop.gff -f ../genomes/Zm-Il14H-REFERENCE-NAM-1.0.fasta  -o Zm-Il14H-REFERENCE-NAM-1.0_Zm00028a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Ki11-REFERENCE-NAM-1.0_Zm00030a.1-fixed-start-stop.gff -f ../genomes/Zm-Ki11-REFERENCE-NAM-1.0.fasta  -o Zm-Ki11-REFERENCE-NAM-1.0_Zm00030a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Ki3-REFERENCE-NAM-1.0_Zm00029a.1-fixed-start-stop.gff -f ../genomes/Zm-Ki3-REFERENCE-NAM-1.0.fasta  -o Zm-Ki3-REFERENCE-NAM-1.0_Zm00029a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Ky21-REFERENCE-NAM-1.0_Zm00031a.1-fixed-start-stop.gff -f ../genomes/Zm-Ky21-REFERENCE-NAM-1.0.fasta  -o Zm-Ky21-REFERENCE-NAM-1.0_Zm00031a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-M162W-REFERENCE-NAM-1.0_Zm00033a.1-fixed-start-stop.gff -f ../genomes/Zm-M162W-REFERENCE-NAM-1.0.fasta  -o Zm-M162W-REFERENCE-NAM-1.0_Zm00033a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-M37W-REFERENCE-NAM-1.0_Zm00032a.1-fixed-start-stop.gff -f ../genomes/Zm-M37W-REFERENCE-NAM-1.0.fasta  -o Zm-M37W-REFERENCE-NAM-1.0_Zm00032a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Mo18W-REFERENCE-NAM-1.0_Zm00034a.1-fixed-start-stop.gff -f ../genomes/Zm-Mo18W-REFERENCE-NAM-1.0.fasta  -o Zm-Mo18W-REFERENCE-NAM-1.0_Zm00034a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Ms71-REFERENCE-NAM-1.0_Zm00035a.1-fixed-start-stop.gff -f ../genomes/Zm-Ms71-REFERENCE-NAM-1.0.fasta  -o Zm-Ms71-REFERENCE-NAM-1.0_Zm00035a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-NC350-REFERENCE-NAM-1.0_Zm00036a.1-fixed-start-stop.gff -f ../genomes/Zm-NC350-REFERENCE-NAM-1.0.fasta  -o Zm-NC350-REFERENCE-NAM-1.0_Zm00036a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-NC358-REFERENCE-NAM-1.0_Zm00037a.1-fixed-start-stop.gff -f ../genomes/Zm-NC358-REFERENCE-NAM-1.0.fasta  -o Zm-NC358-REFERENCE-NAM-1.0_Zm00037a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Oh43-REFERENCE-NAM-1.0_Zm00039a.1-fixed-start-stop.gff -f ../genomes/Zm-Oh43-REFERENCE-NAM-1.0.fasta  -o Zm-Oh43-REFERENCE-NAM-1.0_Zm00039a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Oh7B-REFERENCE-NAM-1.0_Zm00038a.1-fixed-start-stop.gff -f ../genomes/Zm-Oh7B-REFERENCE-NAM-1.0.fasta  -o Zm-Oh7B-REFERENCE-NAM-1.0_Zm00038a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-P39-REFERENCE-NAM-1.0_Zm00040a.1-fixed-start-stop.gff -f ../genomes/Zm-P39-REFERENCE-NAM-1.0.fasta  -o Zm-P39-REFERENCE-NAM-1.0_Zm00040a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Tx303-REFERENCE-NAM-1.0_Zm00041a.1-fixed-start-stop.gff -f ../genomes/Zm-Tx303-REFERENCE-NAM-1.0.fasta  -o Zm-Tx303-REFERENCE-NAM-1.0_Zm00041a.1-fixed-start-stop-fixed-start-stop-cds.fa
agat_sp_extract_sequences.pl -g Zm-Tzi8-REFERENCE-NAM-1.0_Zm00042a.1-fixed-start-stop.gff -f ../genomes/Zm-Tzi8-REFERENCE-NAM-1.0.fasta  -o Zm-Tzi8-REFERENCE-NAM-1.0_Zm00041a.1-fixed-start-stop-fixed-start-stop-cds.fa
