Table 2

The transposable elements of D. melanogaster
Class
 Family
 Canonical length
 X
 2L
 2R
 3L
 3R
 4
 Total number
 Number full length
 Number partial
 Number in proximal 2 Mb
 Average pairwise distance
LTR
 17.6
 7439
 2
 0
 3
 5
 2
 0
 12
 7
 5
 4
 0.006

1731
 4648
 1
 0
 0
 0
 1
 0
 2
 1
 1
 1
 0.000

297
 6995
 22
 12
 6
 7
 10
 0
 57
 18
 39
 12
 0.032

3S18
 6126
 4
 0
 1
 1
 0
 0
 6
 4
 2
 3
 0.075

412
 7566
 8
 0
 7
 11
 5
 0
 31
 24
 7
 6
 0.024

accord
 7404
 0
 0
 1
 0
 0
 0
 1
 0
 1
 0
 -

aurora
 4263
 0
 0
 2
 1
 0
 0
 3
 1
 2
 3
 0.074

blastopia
 5034
 5
 2
 7
 1
 2
 0
 17
 13
 4
 4
 0.016

blood
 7410
 1
 11
 2
 3
 5
 0
 22
 22
 0
 6
 0.001

Burdock
 6411
 2
 4
 4
 0
 3
 0
 13
 7
 6
 4
 0.002

Circe
 6356
 0
 0
 2
 0
 0
 0
 2
 0
 2
 2
 0.057

copia
 5143
 4
 13
 4
 5
 4
 0
 30
 26
 4
 3
 0.002

diver
 6112
 1
 1
 3
 1
 3
 0
 9
 9
 0
 1
 0.002

diver2
 4917
 0
 4
 3
 2
 0
 0
 9
 0
 9
 9
 0.032

Dm88
 4558
 0
 0
 2
 0
 30
 0
 32
 0
 32
 2
 0.015

frogger
 2483
 0
 1
 0
 0
 0
 0
 1
 1
 0
 1
 -

GATE
 8507
 1
 0
 16
 0
 0
 3
 20
 0
 20
 17
 0.077

gtwin
 7411
 2
 2
 0
 2
 0
 0
 6
 2
 4
 3
 0.038

gypsy
 7469
 0
 1
 1
 0
 0
 0
 2
 1
 1
 1
 0.000

gypsy2
 6841
 1
 0
 0
 2
 0
 0
 3
 1
 2
 2
 0.067

gypsy3
 6973
 0
 0
 2
 0
 0
 0
 2
 1
 1
 2
 0.038

gypsy4
 6852
 0
 1
 0
 0
 1
 0
 2
 1
 1
 2
 0.041

gypsy5
 7369
 1
 0
 0
 1
 0
 0
 2
 1
 1
 0
 0.005

gypsy6
 7826
 0
 1
 0
 0
 0
 0
 1
 0
 1
 1
 -

HMS-Beagle
 7062
 4
 5
 1
 0
 3
 0
 13
 9
 4
 3
 0.054

Idefix
 7411
 1
 2
 0
 3
 1
 0
 7
 2
 5
 5
 0.022

invader1
 4032
 0
 0
 4
 3
 18
 1
 26
 1
 25
 7
 0.023

invader2
 5124
 1
 4
 3
 2
 0
 0
 10
 3
 7
 10
 0.053

invader3
 5484
 2
 5
 2
 2
 5
 0
 16
 3
 13
 5
 0.044

invader4
 3105
 0
 4
 2
 1
 1
 1
 9
 2
 7
 2
 0.068

invader5
 4038
 1
 4
 0
 1
 0
 0
 6
 0
 6
 6
 0.068

McClintock
 6450
 0
 0
 0
 1
 0
 1
 2
 2
 0
 1
 0.002

mdg1
 7480
 5
 2
 9
 6
 3
 0
 25
 13
 12
 2
 0.012

mdg3
 5519
 3
 5
 2
 2
 4
 0
 16
 8
 8
 8
 0.009

micropia
 5457
 1
 0
 0
 0
 4
 0
 5
 2
 3
 1
 0.010

opus
 7521
 3
 6
 6
 6
 3
 0
 24
 16
 8
 5
 0.003

qbert
 7650
 0
 0
 1
 0
 0
 0
 1
 1
 0
 1
 -

Quasimodo
 7387
 2
 7
 0
 4
 1
 0
 14
 5
 9
 5
 0.016

roo
 9092
 35
 22
 31
 31
 27
 0
 146
 58
 88
 22
 0.012

rooA
 7621
 1
 0
 0
 1
 1
 2
 5
 0
 5
 3
 0.045

rover
 7318
 3
 0
 1
 0
 2
 0
 6
 3
 3
 3
 0.035

springer
 7546
 2
 1
 4
 1
 3
 0
 11
 5
 6
 5
 0.061

Stalker
 7256
 3
 1
 0
 5
 3
 0
 12
 3
 9
 7
 0.014

Stalker2
 8119
 4
 0
 5
 2
 1
 1
 13
 4
 9
 6
 0.015

Stalker4
 7379
 1
 0
 0
 0
 1
 0
 2
 2
 0
 0
 0.001

Tabor
 7345
 1
 2
 0
 0
 0
 0
 3
 2
 1
 0
 0.001

Tirant
 8526
 4
 3
 3
 4
 5
 1
 20
 15
 5
 5
 0.001

Transpac
 5249
 2
 1
 0
 0
 2
 0
 5
 5
 0
 0
 0.000

ZAM
 8435
 0
 0
 0
 0
 0
 0
 0
 0
 0
 0
 -


















LINE-like
 baggins
 5453
 1
 2
 10
 0
 0
 1
 14
 0
 14
 12
 0.076

BS
 5142
 2
 6
 6
 7
 8
 0
 29
 6
 23
 6
 0.028

Cr1a
 4470
 1
 5
 17
 21
 2
 10
 56
 1
 55
 42
 NC

Doc
 4725
 5
 16
 5
 19
 10
 0
 55
 30
 25
 7
 0.006

Doc2
 4789
 0
 0
 1
 0
 0
 0
 1
 0
 1
 1
 -

Doc3
 4740
 0
 1
 6
 1
 0
 1
 9
 0
 9
 8
 0.065

F
 4708
 2
 7
 10
 10
 11
 2
 42
 16
 26
 11
 0.019

G
 4346
 1
 2
 0
 0
 0
 0
 3
 0
 3
 1
 0.059

G2
 3102
 1
 9
 1
 2
 1
 0
 14
 2
 12
 2
 0.036

G3
 4605
 1
 1
 2
 0
 0
 0
 4
 0
 4
 3
 0.029

G4
 3856
 0
 5
 0
 2
 3
 1
 11
 0
 11
 6
 0.100

G5
 4856
 0
 5
 0
 1
 2
 1
 9
 0
 9
 6
 0.063

G6
 2042
 1
 1
 0
 1
 0
 0
 3
 1
 2
 3
 0.006

Helena
 1317
 2
 1
 1
 1
 2
 0
 7
 0
 7
 5
 0.097

HeT-A
 6083
 0
 0
 0
 0
 0
 3
 3
 0
 3
 0
 0.018

I
 5371
 7
 5
 6
 3
 5
 2
 28
 8
 20
 9
 0.037

Ivk
 5402
 3
 3
 0
 1
 0
 0
 7
 2
 5
 4
 0.070

jockey
 5020
 16
 9
 15
 13
 14
 2
 69
 12
 57
 4
 0.003

jockey2
 3428
 4
 2
 0
 0
 1
 3
 10
 0
 10
 5
 0.112

Juan
 4236
 4
 1
 1
 1
 2
 0
 9
 6
 3
 3
 0.001

R1
 5356
 2
 1
 2
 2
 0
 3
 10
 2
 8
 7
 0.049

R2
 3607
 0
 0
 0
 0
 0
 0
 0
 0
 0
 0
 -

Rt1a
 5108
 0
 0
 6
 5
 2
 0
 13
 5
 8
 6
 0.053

Rt1b
 5183
 4
 6
 14
 7
 5
 1
 37
 5
 32
 22
 0.095

Rt1c
 5443
 11
 2
 2
 1
 0
 1
 17
 1
 16
 14
 0.177

TART
 10654
 0
 0
 0
 0
 0
 1
 1
 0
 1
 0
 -

X
 4740
 3
 8
 4
 8
 2
 0
 25
 6
 19
 12
 0.049


















TIR
 1360
 1177
 10
 18
 16
 20
 11
 30
 105
 10
 95
 48
 0.087

Bari1
 1728
 0
 1
 1
 0
 2
 1
 5
 5
 0
 0
 0.002

Bari2
 1064
 0
 2
 0
 0
 1
 1
 4
 1
 3
 3
 0.043

HB
 1653
 5
 7
 6
 3
 7
 4
 32
 5
 27
 21
 0.114

H
 2959
 5
 11
 2
 1
 5
 0
 24
 1
 23
 3
 0.069

hopper
 1435
 5
 2
 3
 2
 3
 0
 15
 11
 4
 6
 0.048

hopper2
 1680
 0
 3
 0
 2
 0
 0
 5
 1
 4
 0
 0.042

looper1
 1881
 1
 0
 0
 0
 2
 0
 3
 0
 3
 2
 0.048

mariner2
 912
 5
 5
 2
 2
 0
 3
 17
 4
 13
 13
 0.144

NOF
 4347
 2
 0
 2
 2
 1
 0
 7
 0
 7
 4
 0.013

P
 2907
 0
 0
 0
 0
 0
 0
 0
 0
 0
 0
 -

pogo
 2121
 9
 12
 5
 7
 11
 0
 44
 5
 39
 5
 0.020

S
 1736
 9
 4
 11
 11
 12
 4
 51
 14
 37
 27
 0.079

S2
 1735
 1
 3
 3
 3
 2
 1
 13
 0
 13
 8
 0.268

Tc1
 1666
 2
 1
 4
 1
 2
 11
 21
 1
 20
 7
 0.085

transib1
 2167
 0
 0
 2
 0
 0
 0
 2
 0
 2
 2
 0.000

transib2
 2844
 3
 5
 2
 2
 0
 0
 12
 0
 12
 6
 0.082

transib3
 2883
 0
 1
 1
 1
 1
 3
 7
 0
 7
 4
 0.088

transib4
 2656
 2
 1
 2
 0
 0
 0
 5
 1
 4
 4
 0.152


















FB
 FB
 1492
 12
 4
 2
 8
 4
 2
 32
 13
 19
 13
 0.066

The canonical length of each element (in bp) is shown in column 3, the total numbers of each family on each chromosome arm in columns 4-9, the grand totals for each family in column 10, and the numbers that are full length, partial and in the most proximal 2 Mb of the major chromosome arms, in columns 11-13. Partial elements are defined as those whose length is less than 97% of the canonical element. The average pairwise distance within each family is shown in column 14. The Cr1a family could not be reliably aligned and therefore average pairwise distance was not computed (NC).

Kaminker et al. Genome Biology 2002 3:research0084.1   doi:10.1186/gb-2002-3-12-research0084