Data availability
The table below lists the data files currently displayed on the Genome Portal. In the Links column, you can find action buttons to download the data file, go to the website of the source repository from where the data was fetched, and (if applicable) the associated scientific article(s) to the data. You can use the toggle on the top right of the table to switch between the default and the expanded table view.
| Data track name | Description | Links | Accession/DOI | File name | Principal investigator | Principal investigator affiliation | First date on portal |
|---|---|---|---|---|---|---|---|
| Genome | Reference genome sequence (Hi-C scaffolded assembly AobtHiC) | GCA_963669975.1 | CAVLJG01.fasta.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Protein-coding genes | Annotation of protein-coding genes in the primary genome assembly, transferred with Liftoff from the earlier assembly GCA_933228535.1 (Immonen et al. 2023) | GCA_963669975.1 | GCA_963669975.1_AobtHiC_assembly_genomic.gff.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Selective sweeps, Early regime | Candidate selective-sweep regions consistently detected in the Early (short-lived) experimental evolution regime: Pool-HMM calls present in at least 6 of 8 pooled samples (4 lines x 2 sexes). Autosomes only. | 10.17044/scilifelab.34059444.v1 | selective_sweeps_consistent_Early.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Selective sweeps, Late regime | Candidate selective-sweep regions consistently detected in the Late (long-lived) experimental evolution regime: Pool-HMM calls present in at least 6 of 8 pooled samples (4 lines x 2 sexes). Autosomes only. | 10.17044/scilifelab.34059444.v1 | selective_sweeps_consistent_Late.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Coverage, Early regime median | Median read depth across the four Early lines (female and male pools summed per line), corrected for GC content and mappability, in 100 bp bins. | 10.17044/scilifelab.34059444.v1 | coverage_median_corrected_100bp_Early.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Coverage, Late regime median | Median read depth across the four Late lines (female and male pools summed per line), corrected for GC content and mappability, in 100 bp bins. | 10.17044/scilifelab.34059444.v1 | coverage_median_corrected_100bp_Late.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Coverage log2 ratio, Late vs Early | log2 ratio of median corrected read depth, Late vs Early, in 100 bp bins. Positive values indicate higher coverage in Late lines. | 10.17044/scilifelab.34059444.v1 | coverage_log2_ratio_Late_vs_Early_100bp.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Coverage log2 ratio, Late vs Early, denoised | log2 ratio of median corrected read depth, Late vs Early, in 100 bp bins, denoised with a stationary wavelet transform. Input to the CNV segmentation. | 10.17044/scilifelab.34059444.v1 | coverage_log2_ratio_Late_vs_Early_100bp_denoised.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| CNV segmentation, Late vs Early | Circular binary segmentation of the denoised Late vs Early log2 coverage ratio; the value is the segment mean. All segments, before significance filtering. | 10.17044/scilifelab.34059444.v1 | CNV_segmentation_log2_ratio_Late_vs_Early.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| CNV calls, Early regime | Copy-number variants (deletions and gains) differentiated between regimes, called for the Early regime (fold change >= 1.5, permutation P <= 0.05). Columns: call type and population-level copy number minus 2. | 10.17044/scilifelab.34059444.v1 | CNV_calls_Early.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| CNV calls, Late regime | Copy-number variants (deletions and gains) differentiated between regimes, called for the Late regime (fold change >= 1.5, permutation P <= 0.05). Columns: call type and population-level copy number minus 2. | 10.17044/scilifelab.34059444.v1 | CNV_calls_Late.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| CNV calls, Early regime (signal) | The Early CNV calls as a signal track. Value is population-level copy number minus 2 (negative = deletion, positive = gain). | 10.17044/scilifelab.34059444.v1 | CNV_calls_Early.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| CNV calls, Late regime (signal) | The Late CNV calls as a signal track. Value is population-level copy number minus 2 (negative = deletion, positive = gain). | 10.17044/scilifelab.34059444.v1 | CNV_calls_Late.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Lifespan QTL LOD, interval mapping (markers) | LOD scores for lifespan from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Original values at marker positions. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_lifespan_IM_markers.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Lifespan QTL LOD, interval mapping (100 kb interpolated) | LOD scores for lifespan from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_lifespan_IM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Body weight QTL LOD, interval mapping (markers) | LOD scores for body weight from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Original values at marker positions. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_bodyweight_IM_markers.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Body weight QTL LOD, interval mapping (100 kb interpolated) | LOD scores for body weight from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_bodyweight_IM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Lifespan QTL LOD, MQM (markers) | LOD profiles of the six lifespan QTLs from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Original values at marker positions. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_lifespan_MQM_markers.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Lifespan QTL LOD, MQM (100 kb interpolated) | LOD profiles of the six lifespan QTLs from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_lifespan_MQM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Body weight QTL chr2 22.9 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 2 at 22.9 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_bodyweight_MQM_chr2-22.9cM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Body weight QTL chr4 25.3 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 4 at 25.3 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_bodyweight_MQM_chr4-25.3cM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Body weight QTL chr4 28.3 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 4 at 28.3 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_bodyweight_MQM_chr4-28.3cM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Body weight QTL chr6 12.6 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 6 at 12.6 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_bodyweight_MQM_chr6-12.6cM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Body weight QTL chr9 90.5 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 9 at 90.5 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | 10.17044/scilifelab.34059444.v1 | QTL_LOD_bodyweight_MQM_chr9-90.5cM_100kb_interpolated.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Recombination rate, 100 kb | Local recombination rate (cM/Mb) estimated from crossovers in the Early x Late F2 intercross, per 100 kb, unsmoothed. | 10.17044/scilifelab.34059444.v1 | recombination_rate_cM_per_Mb_100kb.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Recombination rate, 2 Mb smoothed | Local recombination rate (cM/Mb) estimated from crossovers in the Early x Late F2 intercross, 2 Mb moving average. | 10.17044/scilifelab.34059444.v1 | recombination_rate_cM_per_Mb_2Mb_smoothed.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| F0 founder coverage, Early line 2 mean | Mean read depth of the four F0 founders from Early line 2 (E2) of the QTL intercross, each normalized by its median depth, in 100 bp bins. | 10.17044/scilifelab.34059444.v1 | F0_coverage_mean_100bp_E2.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| F0 founder coverage, Late line 5 mean | Mean read depth of the four F0 founders from Late line 5 (L5) of the QTL intercross, each normalized by its median depth, in 100 bp bins. | 10.17044/scilifelab.34059444.v1 | F0_coverage_mean_100bp_L5.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| F0 founder coverage log2 ratio, L5 vs E2 | log2 ratio of mean F0 founder read depth, Late line 5 vs Early line 2, in 100 bp bins, capped at -5 to 5. Positive values indicate higher coverage in L5 founders. | 10.17044/scilifelab.34059444.v1 | F0_coverage_log2_ratio_L5_vs_E2_100bp.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Genes, gene-level with ortholog annotation | Gene-level version of the GCA_963669975.1 gene annotation (one feature per gene, pseudogenes removed) with functional annotation from eggNOG-mapper v2.1.12. | 10.17044/scilifelab.34059444.v1 | Aobtectus_GCA_963669975.1_genes_eggNOG.gff3.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Drosophila melanogaster orthologs | Drosophila melanogaster orthologs of A. obtectus protein-coding genes inferred with InParanoid-DIAMOND v5.1, placed at the position of the A. obtectus gene. | 10.17044/scilifelab.34059444.v1 | Aobtectus_GCA_963669975.1_Drosophila_orthologs.gff3.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Differentially expressed genes, female abdomen | Genes differentially expressed between Early and Late lines in female abdomen (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | 10.17044/scilifelab.34059444.v1 | DEGs_Early_vs_Late_female_abdomen.gff3.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Differentially expressed genes, female head and thorax | Genes differentially expressed between Early and Late lines in female head and thorax (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | 10.17044/scilifelab.34059444.v1 | DEGs_Early_vs_Late_female_head_thorax.gff3.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Differentially expressed genes, male abdomen | Genes differentially expressed between Early and Late lines in male abdomen (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | 10.17044/scilifelab.34059444.v1 | DEGs_Early_vs_Late_male_abdomen.gff3.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Differentially expressed genes, male head and thorax | Genes differentially expressed between Early and Late lines in male head and thorax (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | 10.17044/scilifelab.34059444.v1 | DEGs_Early_vs_Late_male_head_thorax.gff3.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Excluded regions, high coverage | Regions with abnormally high read depth (above the 99th percentile) in the pooled samples of both regimes; masked in the analyses. | 10.17044/scilifelab.34059444.v1 | excluded_regions_high_coverage.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Excluded regions, low coverage | Regions with abnormally low read depth (below the 7th percentile) in the pooled samples of both regimes; masked in the analyses. | 10.17044/scilifelab.34059444.v1 | excluded_regions_low_coverage.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Excluded regions, low mapping quality | Regions where fewer than 40% of reads have mapping quality >= 10 in the pooled samples of both regimes; masked in the analyses. | 10.17044/scilifelab.34059444.v1 | excluded_regions_low_mapping_quality.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Excluded regions, assembly gaps and small contigs | Regions within 150 bp of an assembly gap, and contigs shorter than 20 kb; masked in the analyses. | 10.17044/scilifelab.34059444.v1 | excluded_regions_assembly_gaps_small_contigs.bed.gz | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| GC content | GC content per 100 bp bin, as a fraction (0-1). | 10.17044/scilifelab.34059444.v1 | GC_fraction_100bp.bw | Göran Arnqvist | Uppsala University | 13 October 2026 | |
| Mappability | Mappability per 100 bp bin, as depth of simulated paired-end reads mapped back to the assembly (0-300; divide by 300 for a 0-1 scale). | 10.17044/scilifelab.34059444.v1 | mappability_100bp.bw | Göran Arnqvist | Uppsala University | 13 October 2026 |
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Open the Glossary (in a new tab).| Data track name | Description | Links | Principal investigator | Principal investigator affiliation |
|---|---|---|---|---|
| Genome | Reference genome sequence (Hi-C scaffolded assembly AobtHiC) | Göran Arnqvist | Uppsala University | |
| Protein-coding genes | Annotation of protein-coding genes in the primary genome assembly, transferred with Liftoff from the earlier assembly GCA_933228535.1 (Immonen et al. 2023) | Göran Arnqvist | Uppsala University | |
| Selective sweeps, Early regime | Candidate selective-sweep regions consistently detected in the Early (short-lived) experimental evolution regime: Pool-HMM calls present in at least 6 of 8 pooled samples (4 lines x 2 sexes). Autosomes only. | Göran Arnqvist | Uppsala University | |
| Selective sweeps, Late regime | Candidate selective-sweep regions consistently detected in the Late (long-lived) experimental evolution regime: Pool-HMM calls present in at least 6 of 8 pooled samples (4 lines x 2 sexes). Autosomes only. | Göran Arnqvist | Uppsala University | |
| Coverage, Early regime median | Median read depth across the four Early lines (female and male pools summed per line), corrected for GC content and mappability, in 100 bp bins. | Göran Arnqvist | Uppsala University | |
| Coverage, Late regime median | Median read depth across the four Late lines (female and male pools summed per line), corrected for GC content and mappability, in 100 bp bins. | Göran Arnqvist | Uppsala University | |
| Coverage log2 ratio, Late vs Early | log2 ratio of median corrected read depth, Late vs Early, in 100 bp bins. Positive values indicate higher coverage in Late lines. | Göran Arnqvist | Uppsala University | |
| Coverage log2 ratio, Late vs Early, denoised | log2 ratio of median corrected read depth, Late vs Early, in 100 bp bins, denoised with a stationary wavelet transform. Input to the CNV segmentation. | Göran Arnqvist | Uppsala University | |
| CNV segmentation, Late vs Early | Circular binary segmentation of the denoised Late vs Early log2 coverage ratio; the value is the segment mean. All segments, before significance filtering. | Göran Arnqvist | Uppsala University | |
| CNV calls, Early regime | Copy-number variants (deletions and gains) differentiated between regimes, called for the Early regime (fold change >= 1.5, permutation P <= 0.05). Columns: call type and population-level copy number minus 2. | Göran Arnqvist | Uppsala University | |
| CNV calls, Late regime | Copy-number variants (deletions and gains) differentiated between regimes, called for the Late regime (fold change >= 1.5, permutation P <= 0.05). Columns: call type and population-level copy number minus 2. | Göran Arnqvist | Uppsala University | |
| CNV calls, Early regime (signal) | The Early CNV calls as a signal track. Value is population-level copy number minus 2 (negative = deletion, positive = gain). | Göran Arnqvist | Uppsala University | |
| CNV calls, Late regime (signal) | The Late CNV calls as a signal track. Value is population-level copy number minus 2 (negative = deletion, positive = gain). | Göran Arnqvist | Uppsala University | |
| Lifespan QTL LOD, interval mapping (markers) | LOD scores for lifespan from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Original values at marker positions. | Göran Arnqvist | Uppsala University | |
| Lifespan QTL LOD, interval mapping (100 kb interpolated) | LOD scores for lifespan from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Body weight QTL LOD, interval mapping (markers) | LOD scores for body weight from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Original values at marker positions. | Göran Arnqvist | Uppsala University | |
| Body weight QTL LOD, interval mapping (100 kb interpolated) | LOD scores for body weight from interval mapping (sex as additive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Lifespan QTL LOD, MQM (markers) | LOD profiles of the six lifespan QTLs from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Original values at marker positions. | Göran Arnqvist | Uppsala University | |
| Lifespan QTL LOD, MQM (100 kb interpolated) | LOD profiles of the six lifespan QTLs from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Body weight QTL chr2 22.9 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 2 at 22.9 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Body weight QTL chr4 25.3 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 4 at 25.3 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Body weight QTL chr4 28.3 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 4 at 28.3 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Body weight QTL chr6 12.6 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 6 at 12.6 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Body weight QTL chr9 90.5 cM LOD, MQM (100 kb interpolated) | LOD profile of the body weight QTL on chromosome 9 at 90.5 cM from multiple QTL mapping (MQM; sex as interactive covariate) in an Early x Late F2 intercross (1,334 F2 individuals). Linearly interpolated onto 100 kb bins for display. | Göran Arnqvist | Uppsala University | |
| Recombination rate, 100 kb | Local recombination rate (cM/Mb) estimated from crossovers in the Early x Late F2 intercross, per 100 kb, unsmoothed. | Göran Arnqvist | Uppsala University | |
| Recombination rate, 2 Mb smoothed | Local recombination rate (cM/Mb) estimated from crossovers in the Early x Late F2 intercross, 2 Mb moving average. | Göran Arnqvist | Uppsala University | |
| F0 founder coverage, Early line 2 mean | Mean read depth of the four F0 founders from Early line 2 (E2) of the QTL intercross, each normalized by its median depth, in 100 bp bins. | Göran Arnqvist | Uppsala University | |
| F0 founder coverage, Late line 5 mean | Mean read depth of the four F0 founders from Late line 5 (L5) of the QTL intercross, each normalized by its median depth, in 100 bp bins. | Göran Arnqvist | Uppsala University | |
| F0 founder coverage log2 ratio, L5 vs E2 | log2 ratio of mean F0 founder read depth, Late line 5 vs Early line 2, in 100 bp bins, capped at -5 to 5. Positive values indicate higher coverage in L5 founders. | Göran Arnqvist | Uppsala University | |
| Genes, gene-level with ortholog annotation | Gene-level version of the GCA_963669975.1 gene annotation (one feature per gene, pseudogenes removed) with functional annotation from eggNOG-mapper v2.1.12. | Göran Arnqvist | Uppsala University | |
| Drosophila melanogaster orthologs | Drosophila melanogaster orthologs of A. obtectus protein-coding genes inferred with InParanoid-DIAMOND v5.1, placed at the position of the A. obtectus gene. | Göran Arnqvist | Uppsala University | |
| Differentially expressed genes, female abdomen | Genes differentially expressed between Early and Late lines in female abdomen (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | Göran Arnqvist | Uppsala University | |
| Differentially expressed genes, female head and thorax | Genes differentially expressed between Early and Late lines in female head and thorax (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | Göran Arnqvist | Uppsala University | |
| Differentially expressed genes, male abdomen | Genes differentially expressed between Early and Late lines in male abdomen (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | Göran Arnqvist | Uppsala University | |
| Differentially expressed genes, male head and thorax | Genes differentially expressed between Early and Late lines in male head and thorax (FDR < 0.05, absolute log2 fold change > 1; Immonen et al. 2023), placed on this assembly by aligning transcripts with GMAP. Score is the log2 fold change; positive = higher expression in Early lines. | Göran Arnqvist | Uppsala University | |
| Excluded regions, high coverage | Regions with abnormally high read depth (above the 99th percentile) in the pooled samples of both regimes; masked in the analyses. | Göran Arnqvist | Uppsala University | |
| Excluded regions, low coverage | Regions with abnormally low read depth (below the 7th percentile) in the pooled samples of both regimes; masked in the analyses. | Göran Arnqvist | Uppsala University | |
| Excluded regions, low mapping quality | Regions where fewer than 40% of reads have mapping quality >= 10 in the pooled samples of both regimes; masked in the analyses. | Göran Arnqvist | Uppsala University | |
| Excluded regions, assembly gaps and small contigs | Regions within 150 bp of an assembly gap, and contigs shorter than 20 kb; masked in the analyses. | Göran Arnqvist | Uppsala University | |
| GC content | GC content per 100 bp bin, as a fraction (0-1). | Göran Arnqvist | Uppsala University | |
| Mappability | Mappability per 100 bp bin, as depth of simulated paired-end reads mapped back to the assembly (0-300; divide by 300 for a 0-1 scale). | Göran Arnqvist | Uppsala University |
Page last updated: 13/10/2026