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Table 1 Description of models

From: Conserved structure and inferred evolutionary history of long terminal repeats (LTRs)

Name

Taxon

Host

Number in training set

Train_length

M

Score_test

Zam

Gypsy/Ty3

Insects

8

318

150

33

Mag C

Gypsy/Ty3

Metazoans

16

174

50

21

Mag A

Gypsy/Ty3

Mosquito

20

213

90

41

CsRN1

Gypsy/Ty3

Metazoans

13

330

90

27

Sushi

Gypsy/Ty3

Fungi/Metazoans

24

572

150

46

rGmr1

Gypsy/Ty3

Fish

34

695

150

42

Sire

Copia/Ty1

Plants

68

373

150

49

Retrofit

Copia/Ty1

Plants

32

220

150

74

HML

Retroviruses

Primates

23

390

150

81a

Gamma

Retroviruses

Vertebrates

72

521

150

50a

Class III endogenous retroviruses

Retroviruses

Vertebrates

70

504

150

51

  1. Name, taxonomic group, host, number of training sequences, average length of training sequences, chosen number of match states M and score of test set are given for each HMM model. The constituents of the training sets are shown in Additional file 1.
  2. aNo test set; score of training set is shown.