Hierarchical alignments with the <em>Euptelea pleiosperma</em> genome as reference

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Species

Gene ID

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Or, Query Sequence

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Hierarchical alignments with the Euptelea pleiosperma genome as reference

Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Euptelea pleiosperma as a reference, and by comparing homologous gene locus maps and Ks values between Euptelea pleiosperma and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 25×25,104 macro-matrices.

Query Sequence

Or, Gene ID

Species

Eupl_1	Eupl_2	Nenu_1	Nenu_2	Tesi_1	Tesi_2	Tesi_3	Tesi_4	Busi_1	Busi_2	Vivi_1	Vivi_2	Vivi_3	Nin_1	Nin_2	Nin_3	Arla_1	Arla_2	Arla_3	Arla_4	Arla_5	Arla_6	Arla_7	Arla_8	Arla_9
Eupl14g01240	Eupl8g01352	.	.	.	.	.	.	.	.	.	.	Vivi2g00951	.	.	.	.	.	.	.	.	.	.	.	Arla9g01542
Eupl14g01241	.	.	.	Tesi1g00478	.	.	Tesi22g00020	.	.	.	.	Vivi2g00956	.	.	.	.	.	.	.	.	.	.	Arla11g00917	.
Eupl14g01242	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01243	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01244	Eupl8g01357	.	.	.	.	.	.	.	.	.	.	Vivi2g00963	.	.	.	.	.	.	.	.	.	.	.	Arla9g01540
Eupl14g01245	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01246	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01247	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01248	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.	.
Eupl14g01249	.	.	.	.	.	.	Tesi22g00017	.	.	.	.	Vivi2g00964	.	.	Nin5g00339	.	.	.	.	.	.	.	.	Arla9g01537

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Gene_GFF

Chromosome	Start	End	Strand	Old_gene	Gene	Num
9	52295492	52304890	+	evm.model.000048F.216	Arla9g01537	1537
9	52391527	52402512	+	evm.model.000048F.221	Arla9g01540	1540
9	52543648	52548098	+	evm.model.000048F.224	Arla9g01542	1542
11	63841976	63845558	-	evm.model.000137F.135	Arla11g00917	917
8	34565548	34567770	+	evm.model.CTG_193.372	Eupl8g01352	1352
8	34683259	34695167	-	evm.model.CTG_193.379	Eupl8g01357	1357
14	27634022	27642501	+	evm.model.CTG_64.70	Eupl14g01240	1240
14	27646028	27653162	-	evm.model.CTG_64.71	Eupl14g01241	1241
14	27688702	27689011	+	evm.model.CTG_64.74	Eupl14g01242	1242
14	27689138	27691816	+	evm.model.CTG_64.75	Eupl14g01243	1243
14	27699671	27709603	-	evm.model.CTG_64.76	Eupl14g01244	1244
14	27741095	27752028	+	evm.model.CTG_64.78	Eupl14g01245	1245
14	27754076	27755773	+	evm.model.CTG_64.79	Eupl14g01246	1246
14	27755778	27756128	+	evm.model.CTG_64.80	Eupl14g01247	1247
14	27756367	27766069	-	evm.model.CTG_64.81	Eupl14g01248	1248
14	27767536	27794049	-	evm.model.CTG_64.82	Eupl14g01249	1249
5	3816464	3830125	-	NinS13152.t1	Nin5g00339	339
1	10055002	10069588	+	Tesin01G0051400.1	Tesi1g00478	478
22	1215844	1244608	+	Tesin22G0001700.1	Tesi22g00017	17
22	2179901	2182666	+	Tesin22G0002100.1	Tesi22g00020	20
2	18145732	18146910	+	GSVIVT01036890001	Vivi2g00951	951
2	18248689	18251549	-	GSVIVT01036885001	Vivi2g00956	956
2	18345602	18354600	-	GSVIVT01036876001	Vivi2g00963	963
2	18359522	18364201	-	GSVIVT01036874001	Vivi2g00964	964

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