Table 1

Abundance of D. melanogaster TEs annotated in Release 4 genome sequence by genomic region

Class
 Total bp TE
 % TE
 No. of TEs
 No. of TE per Mbp
 No. of TE full length
 % TE full length
 No. of TE nested
 % TE nested
Genome
 LTR
 3,896,903
 3.29
 1,321
 11.16
 325
 24.60
 327
 24.75

Non-LTR
 1,502,997
 1.27
 1,019
 8.61
 121
 11.87
 197
 19.33

TIR
 559,234
 0.47
 752
 6.35
 57
 7.58
 157
 20.88

INE-1
 490,996
 0.41
 2,238
 18.91
 26
 1.16
 91
 4.07

FB
 60,509
 0.05
 60
 0.51
 1
 1.67
 13
 21.67

Total
 6,510,639
 5.50
 5,390
 45.54
 530
 9.83
 785
 14.56










Non-pericentromeric
 LTR
 2,510,569
 2.42
 515
 4.96
 250
 48.54
 80
 15.53

Non-LTR
 646,020
 0.62
 336
 3.24
 80
 22.92
 9
 2.68

TIR
 151,997
 0.15
 214
 2.06
 25
 11.68
 12
 5.61

INE-1
 106,597
 0.10
 660
 6.36
 5
 0.76
 8
 1.21

FB
 28,125
 0.03
 23
 0.22
 1
 4.35
 3
 13.04

Total
 3,443,308
 3.32
 1,748
 16.85
 361
 20.48
 112
 6.41










Pericentromeric
 LTR
 1,324,428
 9.94
 776
 58.24
 70
 9.02
 241
 31.06

Non-LTR
 802,040
 6.02
 623
 46.75
 42
 6.58
 169
 27.13

TIR
 323,226
 2.43
 436
 32.72
 29
 6.65
 115
 26.38

INE-1
 300,615
 2.26
 1,234
 92.61
 17
 1.38
 71
 5.75

FB
 27,773
 0.21
 32
 2.40
 0
 0.00
 9
 28.13

Total
 2,778,082
 20.85
 3,101
 232.72
 158
 5.06
 605
 19.51










Chromosome 4
 LTR
 61,906
 4.83
 30
 23.41
 5
 16.67
 6
 20.00

Non-LTR
 54,937
 4.29
 60
 46.82
 3
 5.00
 19
 31.67

TIR
 84,011
 6.55
 102
 79.59
 3
 2.94
 30
 29.41

INE-1
 83,784
 6.54
 344
 268.41
 4
 1.16
 12
 3.49

FB
 4,611
 0.36
 5
 3.90
 0
 0.00
 1
 20.00

Total
 289,249
 22.57
 541
 422.12
 15
 2.77
 68
 12.57

Overall abundance was partitioned into pericentromeric and non-pericentromeric regions according to the text. Full-length elements were defined as ± 3% of the canonical element. Both inner and outer components of a TE nest were considered nested.

Bergman et al. Genome Biology 2006 7:R112   doi:10.1186/gb-2006-7-11-r112