Table 1

Summary of non-LTR retrotransposon sequences found in the genome of the D. melanogaster isogenic strain y; cn bw sp

Number of elements*
 Localization†
 Full-size elements‡
 5' truncated§
 D
Family
 Total
 Unfinished
 Euchromatic
 ?
 With TSD
 Without TSD
 With TSD
 Without TSD
 >200
BS
 19
 5
 15
 4
 2
 0
 5
 3
 0.055
Doc
 128
 38
 78
 50
 18
 4
 20
 14
 0.095
F
 94
 25
 59
 35
 2
 12
 7
 10
 0.079
G
 37
 3
 22
 15
 1
 0
 2
 12
 0.219
I
 48
 15
 20
 28
 6
 0
 6
 8
 0.097
Jockey
 86
 16
 78
 8
 7
 0
 40
 6
 0.036
JuanDm
 8
 1
 8
 0
 4
 0
 2
 0
 0.003
Waldo-A
 82
 20
 40
 42
 2
 0
 10
 10
 0.119
Waldo-B
 48
 4
 24
 24
 4
 1
 3
 17
 0.137
You
 19
 3
 6
 13
 3
 1
 1
 2
 0.116
QDm
 85 sequences matching reverse transcriptase
 0.435
LOA
 18 sequences matching reverse transcriptase
 0.370
HelenaDm
 9 sequences matching reverse transcriptase
 0.594
TART
 11 sequences matching reverse transcriptase
 0.374
R1Dm
 Only partial elements
 0.417
R2Dm
 No hit
Bilbo
 Only short (70-600 bp) regions with average identity of 55%
HeT-A
 Only short (70-600 bp) regions with average identity of 60%

*The total number of elements of each family and the number of elements that were not completely sequenced are indicated. †The localization of elements on chromosomal bands was deduced from the scaffold mapping [14]. Question mark indicates elements whose sequences were found in scaffolds that were not mapped to chromosomal arms. ‡§The number of full size and 5'-truncated elements, surrounded and not surrounded by TSD, are given. The mean genetic distance between elements longer than 200 bp.

Berezikov et al. Genome Biology 2000 1:research0012.1   doi:10.1186/gb-2000-1-6-research0012