NEXUS
[File created by TreeBASE:  7/26/07  20:56:32]
[Matrix accession#: M422]

BEGIN TAXA;
	TITLE M422;
	DIMENSIONS  NTAX=31;
	TAXLABELS
		Lentinus_lepideus	Multiclavula_corynoides	Multiclavula_vernalis	Gerronema_marchantiae	Omphalina_rosella	Rickenella_pseudogrisella	Rickenella_mellea	Omphalina_brevibasidiata	Gerronema_subclavatum	Gerronema_strombodes	Omphalina_wynniae	Omphalina_grossula	Chrysomphalina_chrysophylla	Omphalina_pyxidata	Omphalina_rivulicola	Clitocybe_lateritia	Hygrocybe_citrinopallida	Arrhenia_auriscalpium	Arrhenia_lobata	Omphalina_obscurata	Phaeotellus_griseopallidus	Omphalina_viridis	Omphalina_sphagnicola	Omphalina_philonotis	Omphalina_epichysium	Omphalina_velutipes	Omphalina_ericetorum	Omphalina_velutina	Omphalina_grisella	Omphalina_hudsoniana	Omphalina_luteovitellina
	;
END;

BEGIN CHARACTERS;
	TITLE M422;
	DIMENSIONS NCHAR=40;
	FORMAT SYMBOLS = " a c g t @ " MISSING = ? GAP = - ;
	MATRIX
		Lentinus_lepideus                 ????????????????????????????????????????
		Multiclavula_corynoides           gc@@tgtgcacac@tttgtcg@a@@ggc@aaacg@ctctt
		Multiclavula_vernalis             gc@@tgtgcacatttttgtcg@a@@g@@@@@@@@@ctctt
		Gerronema_marchantiae             @@@@tgt@ca@a@c@c@@@@@@@@@@g@tctca@@c@@@@
		Omphalina_rosella                 gctgtgtgcacatt@@tg@ag@ac@@gct@tca@tctatt
		Rickenella_pseudogrisella         gctgtgtgcaccct@@tgaag@@c@@gct@tc@g@ctttt
		Rickenella_mellea                 gctgtgtgcacctt@@tg@agg@c@gg@tttca@@cttt@
		Omphalina_brevibasidiata          gctgtgtgcac@tta@tg@agga@@g@ct@t@@g@ctttt
		Gerronema_subclavatum             gctgtgtgcacc@tattgtagg@ct@gc@ctatgtct@@@
		Gerronema_strombodes              gctgtgtgcacc@tattgtagg@ct@g@cctatgtct@@@
		Omphalina_wynniae                 gctgtgtgcac@tttgtgtagg@cc@g?@ctatgtatttt
		Omphalina_grossula                gctgtgtgcacctct@@gtagg@ctggctctacg@cttt@
		Chrysomphalina_chrysophylla       gctgtgtgcacatt@ctgtag@accgg@tctatg?@tttt
		Omphalina_pyxidata                gctgtgtgcac@tcattgtag@acttg@tctatgt@ttt@
		Omphalina_rivulicola              gctgtgtgcac@tcattgtag@acttg@tctatgt@ttt@
		Clitocybe_lateritia               gctgtgtgcac@ttattgtag@acttg@tctatgt@tttt
		Hygrocybe_citrinopallida          gctgtgtgcac@tt@ttgtaggcc@@g@tctatgtttttt
		Arrhenia_auriscalpium             gctgtgtgcaccttattgtagg@ct@gc@ctatgt@tttt
		Arrhenia_lobata                   gctgtgtgcacc@tattgtagg@cc@g@tctatg@@tttt
		Omphalina_obscurata               gctg@gtgcac@ttttcgtagg@cc@g@tctatgtatttt
		Phaeotellus_griseopallidus        gctgtgtgcac@ttactgtagg@cc@gc@ctatgtatttt
		Omphalina_viridis                 gctg@gtgcacctttttgtagg@tc@?c@ctatgta@@@@
		Omphalina_sphagnicola             gctgtgtgcac@ttattgtagg@ct@g@tctatgtatttt
		Omphalina_philonotis              gctgtgtgcac@ttattgtag@act@g@tctatgtatttt
		Omphalina_epichysium              gctgtgtgcac@ttattgtagg@ct@g@tctatgtatttt
		Omphalina_velutipes               gctgtgtgcacc@cactgtagg@ct@g@tctatg@@tttt
		Omphalina_ericetorum              gctgtgtgcacact@ctgtagg@ctggct@tacgtctttt
		Omphalina_velutina                gctgagtgcacctctg@gtagg@tcg@@tctacg@atcg@
		Omphalina_grisella                gctgtgtgcac@tttgtgtagg@cc@g@tctatgtatttt
		Omphalina_hudsoniana              g?tgtgtgcac@tcaatgt?gaaccgg@tctatgtatttt
		Omphalina_luteovitellina          gctgtg?gaaccctattgtaggcct@gc@ctatgtctttt
	;
END;

BEGIN ASSUMPTIONS;
USERTYPE OmphComb25Sonlystepmatrix STEPMATRIX = 5 
 a c g t @ 
 . 3 1 2 3 
 3 . 3 1 4 
 1 3 . 3 3 
 2 1 3 . 3 
 3 4 3 3 . 
 ; 
 
 USERTYPE OmphComb5.8Sonlystepmatrix STEPMATRIX = 5 
 a c g t @ 
 . 3 1 3 3 
 3 . 3 1 4 
 1 3 . 3 4 
 3 1 3 . 5 
 3 4 4 5 . 
 ; 
 
 USERTYPE OmphCombITS1onlystepmatrix STEPMATRIX = 5 
 a c g t @ 
 . 3 4 3 2 
 3 . 4 2 2 
 4 4 . 3 2 
 3 2 3 . 1 
 2 2 2 1 . 
 ; 
 
 USERTYPE OmphCombITS2onlystepmatris STEPMATRIX = 5 
 a c g t @ 
 . 3 3 3 2 
 3 . 3 2 2 
 3 3 . 3 2 
 3 2 3 . 1 
 2 2 2 1 . 
 ; 
 
 OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS ; 
 CHARSET ITS1 = 1 - 40 ; 
 TYPESET * UNTITLED = OmphCombITS1onlystepmatrix @ 1 - 40 ; 
 EXSET ITS1inclusionset = 1 - 40 ; 
 
 END;