Table 1 |
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|
The ten most abundant repetitive sequence clusters detected in the Miscanthus genome |
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|
Cluster ID |
Cluster length (bp) |
Estimated copy number in Miscanthus genome |
Copy number in sorghum genome |
Best match in GenBank nt |
Best match in sorghum genome |
Best match in Plant Repeat Database |
|
|
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|
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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|
Swaminathan et al. Genome Biology 2010 11:R12 doi:10.1186/gb-2010-11-2-r12 |
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