The 229 chromosomes of the Atlas blue butterfly reveal rules constraining chromosome evolution in Lepidoptera

Supplementary data sets associated with the manuscript 'The 229 chromosomes of the Atlas blue butterfly reveal rules constraining chromosome evolution in Lepidoptera'. Repeat libraries - generated using Earl Grey. Supplied in fasta format. ilPolAtla1.1.primary.combined_library.fa.gz ilPolIcar1.1.combined_library.fa.gz Repeat annotations - generated using Earl Grey. Supplied in gff format. ilPolAtla1.1.primary.filteredRepeats.gff.gz ilPolIcar1.1.filteredRepeats.gff.gz Gene annotations - generated using BRAKER3. Supplied in gtf and fasta format. ilPolAtla.1.1.primary.final_annotations.gtf.gz ilPolAtla.1.1.primary.final_annotations.proteins.fa.gz ilPolAtla1.1.primary.final_annotations.cds.fa.fz ilPolIcar.1.1.primary.final_annotations.gtf ilPolIcar.1.1.primary.final_annotations.proteins.fa.gz ilPolIcar.1.1.primary.final_annotations.cds.fa.gz Lycaenidae phylogeny - supplied in newick format. lycaenidae_phylogeny.supermatrix.backtrans_nucs.4815orthos.treefile VCF files - generated using DeepVariant. ilAriAges1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp102.vcf.gz ilAriArta2.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp53.vcf.gz ilCelArgi3.2.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp59.vcf.gz ilCyaSemi1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp85.vcf.gz ilGlaAlex1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp77.vcf.gz ilLycPhla1.2.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp107.vcf.g ilLysBell1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp104.vcf.gz ilLysCori1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp93.vcf.gz ilPheArio1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp286.vcf.gz ilPleArgu1.3.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp43.vcf.gz ilPolAtla1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp68.vcf.gz ilPolIcar1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp66.vcf.gz ilPolIphi1.1.deepvariant.PASS.biallelic.repeat_filtered.vcf.q15.vaf02.vaf08.dp10.dp89.vcf.gz