Pine tree gene sets compared with homology to reference protein pitaeg8 = Evigene of 2 multi-kmer + trinity assemblies of Pinus taeda, 2013 august eugenes.org/EvidentialGene/plants/pine/pine_evigene201308/publicset/ pitav1tr = old.evigene of 1 multi-kmer (Velvet/O), 2 trinity of Pinus taeda, 2013, with ad-hoc removals (partial gene assemblies?) pita2trpacbio = PacBio assemblies of Pinus taeda genes, 2016 pita1gmodl = Maker gene models of Pinus taeda, 2015? v1.1 treegenesdb.org/ftp/Genome_Data/genome/pinerefseq/Pita/ tsaGEUZ = Illumina-Trinty + PacBio assemblies of Pinus lamb. (pila, sugar pine), 2016, Genbank-TSA pilav1gm = Maker gene models of Pinus lamb. (sugar), 2016 treegenesdb.org/ftp/Genome_Data/genome/pinerefseq/Pila/ tsaGECO = Evigene of 2 multi-kmer assemblies + trinity of Illumina of Pinus patula, 2015, GenBank-TSA tsaGBLJ = Trinity of Illumina rnaseq of Pinus canariensis, 2015, GenBank-TSA tsaGDQR = Trinity of Illumina rnaseq of Pinus albicaulis, 2015, GenBank-TSA ---------- Reference grape (vitvi 2015 ncbi) vitvi15nc, mainref=0, nref=1, mineq=0.3 Geneset nHit pHit Algn Ident pAln pIden for nref=35618 pilav1gm 30981/35618 86.9 356.4 204.3 70 57.9 pita1gmodl 31837/35618 89.3 361.6 205.1 71 57.4 pita2trpacbio 30121/35618 84.5 314.2 182.1 66.7 57.6 pitaeg8 35094/35618 98.5 428.2 250 82.7 58.6 pitav1tr 31260/35618 87.7 380 214.5 72.7 56.1 tsaGBLJ 33750/35618 94.7 393.5 227.8 77.1 57.8 tsaGDQR 30200/35618 84.7 397.5 228.8 70.8 56.9 tsaGECO 34530/35618 96.9 426.8 249.5 82.4 58.3 tsaGEUZ 32152/35618 90.2 396.1 232.3 76.7 58.6 #------------------ Reference arabidopsis (2015 araport) arath15ap, mainref=1 nref=1 mieq=0.3 Geneset nHit pHit Algn Ident pAln pIden for nref=23161 pilav1gm 20275/23161 87.5 317.4 183.6 70.1 57.6 pita1gmodl 20741/23161 89.5 318 181.6 70.5 57 pita2trpacbio 19792/23161 85.4 289.3 167.1 67.1 57 pitaeg8 22652/23161 97.8 374.1 219.3 80.9 58.1 pitav1tr 19987/23161 86.2 332.8 188.8 70.8 55.9 tsaGBLJ 21322/23161 92 344.6 200 74.7 57.4 tsaGDQR 18830/23161 81.3 344.5 198.7 67.6 56.3 tsaGECO 22122/23161 95.5 375.6 220.3 80.4 57.8 tsaGEUZ 20553/23161 88.7 351.7 207.1 75.3 58.3 arath15ap, mainref=1 nref=0 mieq=0.3 Geneset nHit pHit Algn Ident pAln pIden for nref=23161 pilav1gm 20275/20275 87.5 362.6 209.7 80.1 57.6 pita1gmodl 20741/20741 89.5 355.2 202.8 78.8 57 pita2trpacbio 19792/19792 85.4 338.5 195.6 78.5 57 pitaeg8 22652/22652 97.8 382.5 224.2 82.7 58.1 pitav1tr 19987/19987 86.2 385.7 218.8 82.1 55.9 tsaGBLJ 21322/21322 92 374.3 217.2 81.2 57.4 tsaGDQR 18830/18830 81.3 423.7 244.4 83.1 56.3 tsaGECO 22122/22122 95.5 393.2 230.6 84.2 57.8 tsaGEUZ 20553/20553 88.7 396.3 233.4 84.9 58.3 arath15ap, mainref=1 nref=1 mieq=0.3, longest 1000 REF Geneset nHit pHit Algn Ident pAln pIden for nref=999 pilav1gm 803/999 80.3 809.9 473.6 60 56.8 pita1gmodl 830/999 83 860.5 493.5 63.2 56 pita2trpacbio 742/999 74.2 591.1 346.3 46.4 57 pitaeg8 994/999 99.4 1182.9 696.7 83.5 57.7 pitav1tr 866/999 86.6 971.5 556.8 70.3 55.6 tsaGBLJ 971/999 97.1 997 585.7 72.5 57.3 tsaGDQR 963/999 96.3 1132.6 663 80.4 57 tsaGECO 980/999 98 1131.2 671.8 81.8 57.7 tsaGEUZ 909/999 90.9 1009.6 602.8 74 57.8 #------------------ ## ordered by pHit arath15ap, mainref=1 nref=1 mieq=0.3 Geneset nHit pHit Algn Ident pAln pIden for nref=23161 pitaeg8 22652/23161 97.8 374.1 219.3 80.9 58.1 tsaGECO 22122/23161 95.5 375.6 220.3 80.4 57.8 tsaGBLJ 21322/23161 92 344.6 200 74.7 57.4 pita1gmodl 20741/23161 89.5 318 181.6 70.5 57 tsaGEUZ 20553/23161 88.7 351.7 207.1 75.3 58.3 pilav1gm 20275/23161 87.5 317.4 183.6 70.1 57.6 pitav1tr 19987/23161 86.2 332.8 188.8 70.8 55.9 pita2trpacbio 19792/23161 85.4 289.3 167.1 67.1 57 tsaGDQR 18830/23161 81.3 344.5 198.7 67.6 56.3 vitvi, mainref=0 nref=1 mieq=0.3 Geneset nHit pHit Algn Ident pAln pIden for nref=35618 pitaeg8 35094/35618 98.5 428.2 250 82.7 58.6 tsaGECO 34530/35618 96.9 426.8 249.5 82.4 58.3 tsaGBLJ 33750/35618 94.7 393.5 227.8 77.1 57.8 tsaGEUZ 32152/35618 90.2 396.1 232.3 76.7 58.6 pita1gmodl 31837/35618 89.3 361.6 205.1 71 57.4 pitav1tr 31260/35618 87.7 380 214.5 72.7 56.1 pilav1gm 30981/35618 86.9 356.4 204.3 70 57.9 tsaGDQR 30200/35618 84.7 397.5 228.8 70.8 56.9 pita2trpacbio 30121/35618 84.5 314.2 182.1 66.7 57.6 #------------------