Table 3 Amino acid divergences of proteins and RT-Int fragments of CHD-containing Gypsy LTR retrotransposons from Tcn1, Pyggy and Pyret clades

inorganic phosphate transporter (Pho88)^a

Physcomitrella patens (XM_001783642)/Schizosaccharomyces pombe (NM_001019478)

154 aa

26.8

0.420

P. patens (XM_001783642)/Coprinus cinereus (XM_001836748)

151 aa

23.1

0.445

P. patens/Phanerochaete chrysosporium (JGI: scaffold_7 [325337..326089])

151 aa

25.0

0.428

P. patens/Cryptococcus neoformans (XM_569621)

152 aa

20.1

0.521

C. cinereus/Ph. chrysosporium

151 aa

64.9

ND

C. cinereus/C. neoformans

151 aa

51.3

0.472

Ph. chrysosporium/C. neoformans

151 aa

58.6

ND

uric acid-xanthine permease (uapA)^a

P. patens (XM_001784081)/Ashbya gossypii (NM_212305)

466 aa

40.7

0.266

P. patens/C. cinereus (XM_001839036)

456 aa

38.4

0.288

P. patens/Ph. chrysosporium (JGI: scaffold_22 [347275..348820])

391 aa

43.6

0.263

P. patens/C. neoformans (AF542528)

472 aa

36.9

0.318

C. cinereus/Ph. chrysosporium

391 aa

67.9

ND

C. cinereus/C. neoformans

456 aa

39.6

0.560

Ph. chrysosporium/C. neoformans

391 aa

43.2

ND

Tcn1

Tcn1 C. neoformans/Ccchromovir-1 C. cinereus

684 aa

53.6

0.441

Tcn1 C. neoformans/PcMetavir6 Ph. chrysosporium

684 aa

52.2

ND

Tcn1 C. neoformans/BatDenTy3-1 B. dendrobatidis

677 aa

49.1

0.381

PcMetavir6 Ph. chrysosporium/Ccchromovir-1 C. cinereus

688 aa

72.4

ND

PcMetavir6 Ph. chrysosporium/BatDenTy3-1 Batrachochytrium dendrobatidis

677 aa

47.0

0.412

BatDenTy3-1 B. dendrobatidis/Ccchromovir-1 C. cinereus

677 aa

46.5

0.411

Tcn1 C. neoformans/PpatensLTR1 P. patens

675 aa

52.0

0.216 (HT)

Tcn1 C. neoformans/SM-Tcn1 Selaginella moellendorffii

682 aa

50.3

0.235 (HT)

PcMetavir6 Ph. chrysosporium/PpatensLTR1 P. patens

675 aa

51.8

0.217 (HT)

PcMetavir6 Ph. chrysosporium/SM-Tcn1 S. moellendorffii

682 aa

49.5

0.230 (HT)

PpatensLTR1 P. patens/SM-Tcn1 S. moellendorffii

675 aa

58.6

0.429

Pyggy

PyrTriTy3-2 Pyrenophora tritici-repentis/NecHaemTy3-4Nectria haematococca

706 aa

77.0

0.259 (HT)

PyrTriTy3-2 P. tritici-repentis/ChaGloTy3-8 Chaetomium globosum

706 aa

48.5

0.706

PyrTriTy3-2P. tritici-repentis/grh Magnaporthe grisea

701 aa

49.2

0.703

PyrTriTy3-2 P. tritici-repentis/Dane4Aspergillus nidulans

695 aa

55.5

0.531

AltBraTy3-2Alternaria brassicicola/NecHaemTy3-4N. haematococca

709 aa

47.7

0.880

AltBraTy3-2A. brassicicola/Dane4 A. nidulans

695 aa

49.2

0.649

grh M. grisea/Dane4 A. nidulans

695 aa

48.5

0.670

Pyret

skippy Fusarium oxysporum/PyrTriTy3-1 P. tritici-repentis

648 aa

40.4

0.772

skippy F. oxysporum/AFLAV Aaspergillus flavus

673 aa

41.4

0.766

AFLAV A. flavus/PyrTriTy3-1 P. tritici-repentis

648 aa

44.3

0.656