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Table 1 The ten most abundant repetitive sequence clusters detected in the Miscanthus genome

From: Genomic and small RNA sequencing of Miscanthus × giganteusshows the utility of sorghum as a reference genome sequence for Andropogoneae grasses

Cluster ID Cluster length (bp) Estimated copy number in Miscanthusgenome Copy number in sorghum genome Best match in GenBank nt Best match in sorghum genome Best match in Plant Repeat Database
137362 3,866 8.82 × 103 2.15 × 103 AC169373 Sorghum Chromosome 2 AF137608 Sorghum bicolor centromere-associated repetitive DNA element CEN38
136340 1,441 1.97 × 104 7.73 × 103 No hits Super contig 18 AY129008 Zea mays CRM centromeric retrotranposon
137115 2,512 1.02 × 104 1.90 × 103 No hits Super contig 20 AY828019 Oryza sativa (japonica cultivar-group) clone CRR2_CH4-2 CRR2 retrotransposon
136416 1,855 1.32 × 104 1.27 × 103 No hits Chromosome 10 AY129008 Zea mays CRM centromeric retrotranposon
137059 2,586 8.27 × 103 2.05 × 102 No hits Chromosome 2 ZRSiTERTOOT00157 giepum_438D03-1 giepum_Z438D03-1 Z438D03 retrotransposon
137200 3,655 5.61 × 103 3.68 × 102 No hits Chromosome 9 SRSiTERTOOT00084 leviathan_98N8-1 leviathan_98N8-1 retrotransposon
137015 2,882 6.83 × 103 7.5 × 101 No hits Chromosome 7 AF078902.1 Sorghum bicolor centromere element pHind12
137326 3,527 5.56 × 103 3.30 × 102 AF11417 Sorghum Chromosome 2 AZ922428 MRCot4C10 Sorghum bicolor MRCot Sorghum bicolor genomic similar to Sorghum bicolor centromere element pHind12
137201 3,647 5.28 × 103 2.16 × 102 No hits Chromosome 10 ZRSiTERTOOT00156 giepum_333J11-1hdnm giepum_Z333J11-1hdnm Z333J11 retrotransposon
135786 2,456 7.82 × 103 1.89 × 102 No hits Chromosome 4 ORSiTERTOOT00275 osr10 retrotransposon
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Genome Biology

ISSN: 1474-760X

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