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primary_assembly_metadata
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| # primary potato transcriptome assemblies | |||||||||
| # Software used: # Trinity v.r2013-02-25 # Velvet in conjunction with Oases v. 1.2.10 # SPAdes v.3.11.1 # CLC Genomics Workbench (8.5.4 - 10.0.1) | |||||||||
| Assembly_name | Potato genotype/cultivar | Input data type (Illumina, SOLiD, both) | Assembler | Assembler version | k-mer length (word size) | Bubble size | USEin_evigene | comments | |
| CLCdnDe8.fasta | Desiree | SOLiD | CLC de-novo | 9.1 | 24 | 50 | 1 | - | |
| CLCdnDe1.fasta | Desiree | SOLiD | CLC de-novo (transcript discovery as reference) | 10.0.1 | 24 | 50 | 1 | - | |
| VdnDe10.fasta | Desiree | SOLiD | velvet/oasis | v. 1.2.10 | 43 | Default | 1 | - | |
| VdnDe8.fasta | Desiree | SOLiD | velvet/oasis | v. 1.2.10 | 23 | Default | 1 | - | |
| VdnDe9.fasta | Desiree | SOLiD | velvet/oasis | v. 1.2.10 | 33 | Default | 1 | - | |
| CLCdnDe10.fasta | Desiree | Illumina | CLC de-novo | 9.1 | 23 | 85 | 1 | - | |
| CLCdnDe11.fasta | Desiree | Illumina | CLC de-novo | 9.1 | 33 | 85 | 1 | - | |
| CLCdnDe12.fasta | Desiree | Illumina | CLC de-novo | 9.1 | 43 | 85 | 1 | - | |
| CLCdnDe13.fasta | Desiree | Illumina | CLC de-novo | 9.1 | 53 | 85 | 1 | - | |
| CLCdnDe14.fasta | Desiree | Illumina | CLC de-novo | 9.1 | 63 | 85 | 1 | - | |
| CLCdnDe9.fasta | Desiree | Illumina | CLC de-novo | 9.1 | 21 | 85 | 1 | - | |
| CLCdnDe2.fasta | Desiree | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 21 | 85 | 1 | - | |
| CLCdnDe3.fasta | Desiree | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 23 | 85 | 1 | - | |
| CLCdnDe4.fasta | Desiree | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 33 | 85 | 1 | - | |
| CLCdnDe5.fasta | Desiree | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 43 | 85 | 1 | - | |
| CLCdnDe6.fasta | Desiree | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 53 | 85 | 1 | - | |
| CLCdnDe7.fasta | Desiree | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 63 | 85 | 1 | - | |
| TDe.fasta | Desiree | Illumina | Trinity | v.r2013-02-25 | 25 | NA | 1 | - | |
| VdnDe1.fasta | Desiree | Illumina | velvet/oasis | v. 1.2.10 | 23 | Default | 1 | - | |
| VdnDe2.fasta | Desiree | Illumina | velvet/oasis | v. 1.2.10 | 33 | Default | 1 | - | |
| VdnDe3.fasta | Desiree | Illumina | velvet/oasis | v. 1.2.10 | 43 | Default | 1 | - | |
| VdnDe4.fasta | Desiree | Illumina | velvet/oasis | v. 1.2.10 | 53 | Default | 1 | - | |
| VdnDe5.fasta | Desiree | Illumina | velvet/oasis | v. 1.2.10 | 63 | Default | 1 | - | |
| VdnDe6.fasta | Desiree | Illumina | velvet/oasis | v. 1.2.10 | 73 | Default | 1 | - | |
| VdnDe7.fasta | Desiree | Illumina | velvet/oasis | v. 1.2.10 | 83 | Default | 1 | - | |
| CLCdnPW1.fasta | PW363 | SOLiD | CLC de-novo | 8.5.4 | 24 | 50 | 1 | - | |
| CLCdnPW2.fasta | PW363 | SOLiD | CLC de-novo (transcript discovery as reference) | 9.1 | 24 | 50 | 1 | - | |
| VdnPW10.fasta | PW363 | SOLiD | velvet/oasis | v. 1.2.10 | 43 | Default | 1 | - | |
| VdnPW8.fasta | PW363 | SOLiD | velvet/oasis | v. 1.2.10 | 23 | Default | 1 | - | |
| VdnPW9.fasta | PW363 | SOLiD | velvet/oasis | v. 1.2.10 | 33 | Default | 1 | - | |
| CLCdnPW10.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 24 | 65 | 1 | - | |
| CLCdnPW11.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 24 | 85 | 1 | - | |
| CLCdnPW12.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 45 | 50 | 1 | - | |
| CLCdnPW13.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 21 | 50 | 1 | - | |
| CLCdnPW14.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 45 | 65 | 1 | - | |
| CLCdnPW15.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 45 | 85 | 1 | - | |
| CLCdnPW16.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 50 | 50 | 1 | - | |
| CLCdnPW17.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 50 | 65 | 1 | - | |
| CLCdnPW18.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 50 | 85 | 1 | - | |
| CLCdnPW19.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 55 | 50 | 1 | - | |
| CLCdnPW20.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 55 | 65 | 1 | - | |
| CLCdnPW21.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 55 | 85 | 1 | - | |
| CLCdnPW22.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 23 | 50 | 1 | - | |
| CLCdnPW23.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 23 | 65 | 1 | - | |
| CLCdnPW24.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 21 | 65 | 1 | - | |
| CLCdnPW25.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 23 | 85 | 1 | - | |
| CLCdnPW26.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 33 | 50 | 1 | - | |
| CLCdnPW27.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 33 | 65 | 1 | - | |
| CLCdnPW28.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 33 | 85 | 1 | - | |
| CLCdnPW29.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 43 | 50 | 1 | - | |
| CLCdnPW3.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 35 | 50 | 1 | - | |
| CLCdnPW30.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 43 | 65 | 1 | - | |
| CLCdnPW31.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 43 | 85 | 1 | - | |
| CLCdnPW32.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 53 | 50 | 1 | - | |
| CLCdnPW33.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 53 | 65 | 1 | - | |
| CLCdnPW34.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 53 | 85 | 1 | - | |
| CLCdnPW35.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 21 | 85 | 1 | - | |
| CLCdnPW36.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 63 | 50 | 1 | - | |
| CLCdnPW37.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 63 | 65 | 1 | - | |
| CLCdnPW38.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 63 | 85 | 1 | - | |
| CLCdnPW39.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 25 | 50 | 1 | - | |
| CLCdnPW4.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 35 | 65 | 1 | - | |
| CLCdnPW40.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 25 | 65 | 1 | - | |
| CLCdnPW41.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 25 | 85 | 1 | - | |
| CLCdnPW42.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 30 | 50 | 1 | - | |
| CLCdnPW43.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 30 | 65 | 1 | - | |
| CLCdnPW44.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 30 | 85 | 1 | - | |
| CLCdnPW5.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 35 | 85 | 1 | - | |
| CLCdnPW6.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 40 | 50 | 1 | - | |
| CLCdnPW7.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 40 | 65 | 1 | - | |
| CLCdnPW8.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 40 | 85 | 1 | - | |
| CLCdnPW9.fasta | PW363 | Illumina | CLC de-novo | 8.5.4 | 24 | 50 | 1 | - | |
| CLCdnPW45.fasta | PW363 | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 21 | 85 | 1 | - | |
| CLCdnPW46.fasta | PW363 | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 23 | 85 | 1 | - | |
| CLCdnPW47.fasta | PW363 | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 33 | 85 | 1 | - | |
| CLCdnPW48.fasta | PW363 | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 43 | 85 | 1 | - | |
| CLCdnPW49.fasta | PW363 | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 53 | 85 | 1 | - | |
| CLCdnPW50.fasta | PW363 | Illumina | CLC de-novo (transcript discovery as reference) | 10.0.1 | 63 | 85 | 1 | - | |
| SdnPW1.fasta | PW363 | Illumina | rnaSPAdes | 3.11.1 | 43 | Default | 1 | - | |
| TPW.fasta | PW363 | Illumina | Trinity | v.r2013-02-25 | 25 | NA | 1 | - | |
| VdnPW1.fasta | PW363 | Illumina | velvet/oasis | v. 1.2.10 | 23 | Default | 1 | - | |
| VdnPW2.fasta | PW363 | Illumina | velvet/oasis | v. 1.2.10 | 33 | Default | 1 | - | |
| VdnPW3.fasta | PW363 | Illumina | velvet/oasis | v. 1.2.10 | 43 | Default | 1 | - | |
| VdnPW4.fasta | PW363 | Illumina | velvet/oasis | v. 1.2.10 | 53 | Default | 1 | - | |
| VdnPW5.fasta | PW363 | Illumina | velvet/oasis | v. 1.2.10 | 63 | Default | 1 | - | |
| VdnPW6.fasta | PW363 | Illumina | velvet/oasis | v. 1.2.10 | 73 | Default | 1 | - | |
| VdnPW7.fasta | PW363 | Illumina | velvet/oasis | v. 1.2.10 | 83 | Default | 1 | - | |
| PBdnRY1.fasta | Rywal | PacBio Isoseq | ToFu cDNA cupcake pipeline | 2017 | NA | NA | 1 | - | |
| CLCdnRY1.fasta | Rywal | Illumina | CLC de-novo | 9.1 | 21 | 85 | 1 | - | |
| CLCdnRY2.fasta | Rywal | Illumina | CLC de-novo | 9.1 | 23 | 85 | 1 | - | |
| CLCdnRY3.fasta | Rywal | Illumina | CLC de-novo | 9.1 | 33 | 85 | 1 | - | |
| CLCdnRY4.fasta | Rywal | Illumina | CLC de-novo | 9.1 | 43 | 85 | 1 | - | |
| CLCdnRY5.fasta | Rywal | Illumina | CLC de-novo | 9.1 | 53 | 85 | 1 | - | |
| CLCdnRY6.fasta | Rywal | Illumina | CLC de-novo | 9.1 | 63 | 85 | 1 | - | |
| CLCdnRY10.fasta | Rywal | Illumina | CLC de-novo (transcript discovery as reference) | 10.1.1 | 43 | 85 | 1 | - | |
| CLCdnRY11.fasta | Rywal | Illumina | CLC de-novo (transcript discovery as reference) | 10.1.1 | 53 | 85 | 1 | - | |
| CLCdnRY12.fasta | Rywal | Illumina | CLC de-novo (transcript discovery as reference) | 10.1.1 | 63 | 85 | 1 | - | |
| CLCdnRY7.fasta | Rywal | Illumina | CLC de-novo (transcript discovery as reference) | 10.1.1 | 23 | 85 | 1 | - | |
| CLCdnRY8.fasta | Rywal | Illumina | CLC de-novo (transcript discovery as reference) | 10.1.1 | 21 | 85 | 1 | - | |
| CLCdnRY9.fasta | Rywal | Illumina | CLC de-novo (transcript discovery as reference) | 10.1.1 | 33 | 85 | 1 | - | |
| SdnRY1.fasta | Rywal | Illumina | rnaSPAdes | 3.11.1 | 43 | Default | 1 | - | |
| VdnRY1.fasta | Rywal | Illumina | velvet/oasis | v. 1.2.10 | 23 | Default | 1 | - | |
| VdnRY2.fasta | Rywal | Illumina | velvet/oasis | v. 1.2.10 | 33 | Default | 1 | - | |
| VdnRY3.fasta | Rywal | Illumina | velvet/oasis | v. 1.2.10 | 43 | Default | 1 | - | |
| VdnRY4.fasta | Rywal | Illumina | velvet/oasis | v. 1.2.10 | 53 | Default | 1 | - | |
| VdnRY5.fasta | Rywal | Illumina | velvet/oasis | v. 1.2.10 | 63 | Default | 1 | - | |
| VdnRY6.fasta | Rywal | Illumina | velvet/oasis | v. 1.2.10 | 73 | Default | 1 | - | |
| VdnRY7.fasta | Rywal | Illumina | velvet/oasis | v. 1.2.10 | 83 | Default | 1 | - |
