<?xml version="1.0" standalone="yes"?>
<!-- Generated by BEAUTi v1.4.6                                              -->
<!--       by Alexei J. Drummond and Andrew Rambaut                          -->
<!--       Department of Computer Science, University of Auckland and        -->
<!--       Institute of Evolutionary Biology, University of Edinburgh        -->
<!--       http://beast.bio.ed.ac.uk/                                        -->
<beast>
	
	<!-- The list of taxa analyse (can also include dates/ages).                 -->
	<!-- ntax=12                                                                 -->
	<taxa id="taxa">
		<taxon id="Agaricus_bisporus"/>
		<taxon id="Agaricus_xanthodermus"/>
		<taxon id="Auricularia"/>
		<taxon id="Auritella_aureoplumosa"/>
		<taxon id="Auritella_geoaustralis"/>
		<taxon id="Auritella_serpentinocystis"/>
		<taxon id="Boletellus_projectellus"/>
		<taxon id="Chlorophyllum_agaricoides"/>
		<taxon id="Hygrophorus_pudorinus"/>
		<taxon id="Lycoperdon"/>
		<taxon id="Puccinia"/>
		<taxon id="Ustilago_tritici"/>
	</taxa>
	
	<taxa id="Ag+Chloro">
		<taxon idref="Agaricus_bisporus"/>
		<taxon idref="Agaricus_xanthodermus"/>
		<taxon idref="Chlorophyllum_agaricoides"/>
	</taxa>
	<taxa id="Agaricaceae">
		<taxon idref="Agaricus_bisporus"/>
		<taxon idref="Agaricus_xanthodermus"/>
		<taxon idref="Chlorophyllum_agaricoides"/>
		<taxon idref="Lycoperdon"/>
	</taxa>
	<taxa id="Agaricales">
		<taxon idref="Agaricus_bisporus"/>
		<taxon idref="Agaricus_xanthodermus"/>
		<taxon idref="Auritella_aureoplumosa"/>
		<taxon idref="Auritella_geoaustralis"/>
		<taxon idref="Auritella_serpentinocystis"/>
		<taxon idref="Chlorophyllum_agaricoides"/>
		<taxon idref="Hygrophorus_pudorinus"/>
		<taxon idref="Lycoperdon"/>
	</taxa>
	<taxa id="Agaricomycetes">
		<taxon idref="Agaricus_bisporus"/>
		<taxon idref="Agaricus_xanthodermus"/>
		<taxon idref="Auricularia"/>
		<taxon idref="Auritella_aureoplumosa"/>
		<taxon idref="Auritella_geoaustralis"/>
		<taxon idref="Auritella_serpentinocystis"/>
		<taxon idref="Boletellus_projectellus"/>
		<taxon idref="Chlorophyllum_agaricoides"/>
		<taxon idref="Hygrophorus_pudorinus"/>
		<taxon idref="Lycoperdon"/>
	</taxa>
	<taxa id="Agaricomycetidae">
		<taxon idref="Agaricus_bisporus"/>
		<taxon idref="Agaricus_xanthodermus"/>
		<taxon idref="Auritella_aureoplumosa"/>
		<taxon idref="Auritella_geoaustralis"/>
		<taxon idref="Auritella_serpentinocystis"/>
		<taxon idref="Boletellus_projectellus"/>
		<taxon idref="Chlorophyllum_agaricoides"/>
		<taxon idref="Hygrophorus_pudorinus"/>
		<taxon idref="Lycoperdon"/>
	</taxa>
	<taxa id="Agaricus">
		<taxon idref="Agaricus_bisporus"/>
		<taxon idref="Agaricus_xanthodermus"/>
	</taxa>
	<taxa id="Auritella">
		<taxon idref="Auritella_aureoplumosa"/>
		<taxon idref="Auritella_geoaustralis"/>
		<taxon idref="Auritella_serpentinocystis"/>
	</taxa>
	<taxa id="Ag+Ustil">
		<taxon idref="Agaricus_bisporus"/>
		<taxon idref="Agaricus_xanthodermus"/>
		<taxon idref="Auricularia"/>
		<taxon idref="Auritella_aureoplumosa"/>
		<taxon idref="Auritella_geoaustralis"/>
		<taxon idref="Auritella_serpentinocystis"/>
		<taxon idref="Boletellus_projectellus"/>
		<taxon idref="Chlorophyllum_agaricoides"/>
		<taxon idref="Hygrophorus_pudorinus"/>
		<taxon idref="Lycoperdon"/>
		<taxon idref="Ustilago_tritici"/>
	</taxa>
	
	<!-- The sequence alignment (each sequence refers to a taxon above).         -->
	<!-- ntax=12 nchar=2032                                                      -->
	<alignment id="alignment" dataType="nucleotide">
		<sequence>
			<taxon idref="Agaricus_bisporus"/>
			GGAAAAGCTCAAATTTAAAATCTGGCGGTCTTT---GGCCGTCCGAGTTGTAATCTAGAGAAGTAATGCCCGTGCTGGA--CCGTGTATAAGTCTCCTGGGATGGGGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGT-GCATT-GTGGTATGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCCAGGGATCAGCCTTGCT----TTTGCAT-GGTGTACTTTCTGG---TTGACGGGTCAGCATCAATTTT-GACCGCTGGAAAAGGGC-CTGGGGAATGTGGCA--GCT-TCG--GCTGTGTTATAGCCCCTGGTCGC-ATACAGTGGTTGGGATTGAGGAACTCAGCACGCC-GCAAGG--CCGGGT-----TTCGACCACG----TTCGTGCTTAGGATG-CTGGCATAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGG--AAAACCCGACTGCGCAATGAAAGTGAAA-GTTGA-GATCCCTG-TCGT-GGGGAGCATCGACGCCCGGACC---AGAACTTTT-GGG--ACGGATCCGCGGTGGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCAT---ATCAGATTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGAACGAGCCGTTTCTTGA--TTGAACCGCTCG-GCGATTGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGCGAGGTTAAGGTGCCGGAATTCACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAACCCGCTAAGGAGTGTGTAACAACTCACCTGCCGAATGAACTAGCCCTGAAAATGGAGACACCGGAAGGTCAAGCTTGCGGTCTCGTGAAGAACCTTGCGTTGATGTCTTGCATCTCTGTTGGTTCATACTCGGCTCCTGTCATTGAATTTTTGGAGGAGTGGGGTCTTGAGTCTCTGGAAGAAAATGCACATTCGACTTCGCCGTGTACGAAGGTCTTCGTCAATGGTGTTTGGATGGGCGTTCATCGTGATCCCGCCAACTTGGTCAAGACCATCAAAAAACTCAGAAGAAAGGACGACATCAGTCCTGAAGTCTCGGTTGTACGCGATATCCGAGAGAAAGAGCTGCGAATCTATACAGATGCAGGTCGTGTTTGCAGACCACTATTCATTGTCGAAAATCAGCA---ATTGCTTCTGGGAAAGAGGCATATTCGGTGGCTGAATAGTGGTTCTG---------ATGACGAA---GGCAACGAG------------------------TATAAGTGGGAACAGCTAATCAAGGGTGGTGTCATTGAGTTGTTGGATGCAGAAGAAGAAGAGACGGTCATGATCTCGATGACTCCTGAAGATCTGGAGAACTCTCGTCTGCAGGCTGCTGGTGTTGATCCTCATGCTAATGATGGTGACTTTGATCCCGCGGCGCGTCTTAAGGCTGGTACACAT------GCTCACACTTGGACCCACTGTGAGATCCACCCGAGTATGATTCTTGGTATTTGCGCTAGTATCATACCGTTCCCTGACCATAATCAATCACCCCGTAATACA
		</sequence>
		<sequence>
			<taxon idref="Agaricus_xanthodermus"/>
			---------------------------GTCTTT---GGTCGTCCGAGTTGTAATCTAGAGAAGTAATGCCCGTGCTGGA--CCGTGTATAAGTCTCCTGGGATGGGGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGT-GCATT-GTGGTATGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCCGGGGATCAGCCTTGCT----TTTGCAT-GGTGTACTTTCTGG---TTGACGGGTCAGCATCAATTTT-GACCGCTGGAAAAGGGC-CTGGGGAATGTGGCA--GCT-TCG--GCTGTGTTATAGCCCCTGGTCAC-ATACGGCGGTTGGGATTGAGGAACTCAGCACGCC-GCAAGG--CCGGGT-----TTCGACCACG----TTCGTGCTTAGGATG-CTGGCATAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGA--AAAACCCGAGTGCGCAATGAAAGTGAAA-GTTGA-GATCCCTG-TCGT-GGGGAGCATCGACGCCCGGACC---AGAACTTTT-GGG--ACGGATCCGCGGTGGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????
		</sequence>
		<sequence>
			<taxon idref="Auricularia"/>
			GGATGAGCTCAAATTTGAAATCTGGCGGTCTCA---GGCCGTCCGAGTTGTAATCTAGAGAGGTGTTTTCCGTGCCGGA--CCGTGTACAAGTCCCTTGGAACAGGGCGTCATAGAGGGTGAGAATCCCGTCCATGACACGGACTACCGGT-GCTCT-GTGATACACCTTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATACAGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTCCGCAGGGACTCAGCCTTGCT----TCTGCTT-GGTGCACTTCTCTG---TGGATGGGCCAGCATCGATTTT-GGTCGCCGGAAAAGGGC-GGGAGGAATGTGGCA--GCT-TTT--GCTGTGTTATAGCCTCTCGTTGT-ACACGGTGGTTGGGATCGAGGACTGCAGCACGCC--TTTGG--TCGGGG-----TTCGCCCACG---CCACGTGCTTAGGATG-CTGGCGTAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGRGTGC--AAAACYCAGGCGCGTAATGAAAGTGAAAAGTTGG--GACTCTT-TAGT---GAGGCACCGACGCCCGAACC---TGAAGTYYT-CTG--ACGGTTTTGAGGCAGAGCAWGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCAC---ATCAGTTTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGATCGGACCGTCACTTGA--TTGGACCGTCTG-GCGAATGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGATCGCGAGGTTAAGGTGCCGGAATACACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACTCACCTGCCGAATGAACTAGCCCTGAAAATGGAGACGCCGGAAGGACAGGCGTGCGGTCTGGTGAAGAACTTGGCGCTCATGGCCTGTATTTCGGTCGGCTCGCTTTCTGCTCCGGTCATTGAGTTCTTGGAGGAGTGGGGTCTAGAGTCGCTCGAGGAGAATGCCCACTCCGGCATCCCGTCGACGAAAGTATTCGTGAACGGCGTGTGGATGGGTGTACATCGCGACCCCGCCAACCTGGTGAAGACGATCAAGAAGCTGCGTCGGAAGGACGACATCAGTCCCGAGGTTTCTGTCGTACGAGACATCCGCGAGAAGGARCTGCGCTTATACACCGATGCTGGCCGAGTGTGTCGACCCCTGTTCATTGTCGAGGATCAGCA---GCTCGTC---ATCAAAAAGCATCATGTCGAGTGGATCCAGAACAAGG---------AGGACGAGCACGGCGCATCA------------------------TTCAAATGGGATAACTTGATCAAGACGGGGTTGATCGAGCTGCTGGATGCCGAGGAGGAGGAGACTGTCATGATCTGCATGACGTCTGACGACTTGGAGAACTCTCGTCTTCAGAGTCGAGGCATGGCGCCGCGCGACGCGGACAACGAGTTCGACCCAGCGGCGCGCTTGAAATCCATCGTAAAT------GCGCACACTTGGACGCACTGCGAGATTCACCCGAGTATGATTCTGGGCATTTGCGCGAGTATCATTCCTTTCCC----------------------------
		</sequence>
		<sequence>
			<taxon idref="Auritella_aureoplumosa"/>
			GGAAGAGCTCAAATTTAAAATCTGGTGGTCCTTATGGGCTGCTCGAGTTGTAATCTAAAGAAGTGCTGCCCGCGCCGGAACCCATGTAAAAGTCTTCTGGAACGAAGCGTCATAGAGGGTGAGAATCCCGTCCTTGACATGGGGTTT--GGGGCTTT-GTGGCGCGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATGCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGCGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGAAGTCAGTCGCATCGGCTTGGAATCAACCTTTCTGCTTTTTGCAGGGGTGCACTTCCTTGATTCCGATGGGCCAGCATCAATTTC-GACCGTCAGAAAAAGGTGATAGGGAATGTGGCATCGCTCTTGTTGATGTGTTATAGCCCATTGATCATATGTGGCGGTCGGGATTGAGGAACTCAGCACACCCTCAAAA----GGGCTTTTTTTAAAA--------ATTGTGCTTAGGATGGCTGGCGTAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGG-AGAAACCCATGCGCGAAATGAAAGTGAGA-GTTGA-GATCCCCCCTTG--GGGGAGCATCGACACCTGGACC---AGAGCTTTTTGCG--ACGGATCCATGGTGGAGCATGCATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCGTTAGATCAGATTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGAACGGGCCGTCTCTTGA-CCTGGACCGCTCGAGCGATTGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGCGAGGTTAAGGTGCCGGAATTCACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACTCACCTGCCGAATGAACTAGCCCTGAAAATG??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????
		</sequence>
		<sequence>
			<taxon idref="Auritella_geoaustralis"/>
			--------------------------------------------------------AAAAAAGTGCTGCCCGCGCTAGGACCCATGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACATGGGCTTTCTGGGGCTTT-GTGGCATGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATTGGTGGTAAATGCCATCTAAAGCTAAATACAGGCGAGAGACCGATAGTGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGAAGTCAGTCTCATCAGCTTGGAATCAACCTTTGC---TTCTGCTG-GGTGCACTTTCTTGATTCTGATGGGTCAGCATCGATTTT-GGTCACTGGAAAAAGGCCGTAGGGAATGTGACATCTCT-TTGTGGATGTGTTATAGCCCATGGTCAT-ATGCAGTGGTTGGGATTGAGGAACTCAGCATGCCCGCAAGGG-CTGGGT-TTTTTTAAACCACA---TCTCATGCTTAGGATGGCTGGCATAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGG-AAAAACTCATGCGCGCAATGAAAGTGAAA-GTTGG-GATCCCTG-TCGTTGGGGAGCACCGACACCCGGACC---AGACCTTTT-GTG--ACGGATCTGCGGTAGAGCATGCATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCATCTCATCAGATTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGAACGGGCTGTCTCTTGACTTTGGACTGCTCGAGCGATTGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGCGAGGTTAAGGTGCCAGAATTCACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACTCACCTGCCGAATGAACTAGCCCTGAAAATGGAAACTCCAGAAGGTCAAGCTTGTGGTCTCGTCAAGAATTTGGCCTTAATGGCGTGTATCTCTGTCGGGTCGTTTTCTGGGCCTGTCATCGAATTTTTGGAAGAGTGGGGTCTGGAATCATTGGAAGAGAATGCACATTCATCGACGACATTCACCAAGGTGTTTGTTAATGGCGTTTGGATTGGTGTGCATCGTGATGCGGCTAATCTCGTAAAGACGTTAAAGAGGCTGAGAAGAAGAGATGATATCAGTACGGAAGTTTCGGTTGTGAGAGATATCCGAGAAAGGGAGATGAGGGTGTATACCGATGCGGGTCGGGTTTGCAGACCGTTGTTCATCGTGGAAGACCAGCA---GTTGATTTTGCAGAAGAAGCATATCAGGTGGCTTAACAATGGGATTG---------ATGATGAA---GGGCATGAG------------------------TTCAAATGGGAGCAGTTGGTTAAGGGTGGTATTATCGAGCTACTTGATGCGGAGGAGGAAGAAACGGTGATGATATCGATGACGCCTGAGGACTTGGAGAATTCGCGACTTCAACAGAGGGGTATTGATCCACATGCAAATGATGGAGAATTTGACCCGGCTGCTCGTCTCAAGGCTGGGACTCAT------GCGCATACTTGGACGCATTGCGAGATTCATCCTAGTATGATTCTCGGCGTTTGCGCCAGTATCATTCCTTTCCCTGATCATAACCAGTCACCTCGTAACACC
		</sequence>
		<sequence>
			<taxon idref="Auritella_serpentinocystis"/>
			GGAAGAGCTCAAATTTAAAATCTGGTAGTCCTTTAAGACTGCTCGAGTTGTAATCTAAAGAAGTGCTGCCCGCGCTAGGACCTATGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACATNGGCTTTCTGGGGCTTT-GTGGCATGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATTGGTGGTAAATGCCATCTAAAGCTAAATACAGGCGAGAGACCGATAGTGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGAAGTCAGTCTCATCAGCTTGGAATCAACCTTTGC---TTCTGCTG-GGTGCACTTCCTTGATTCTGATGGGTCAGCATCAATTTN-GGCCACTGGAAAAAGGCTGTAGGGAATGTGACATCTCT-TTGTGGATGTGTTATAGCCCATGGTCAT-ATGCAGTGGTTGGGATTGAGGAACTCAGCATGCCCGCAAGGG-CTGGGTTTTTTTTAAACCACG---TCTCATGCTTAGGATGGCTGGCATAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGG-AAAAACTCATGCGCGCAATGAAAGTGAAA-GTTGG-GATCCCTG-TTGTTGGGGAGCACCGACACCCGGACC---AGACCTTTT-GTG--ACGGATCTGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCATCCCATCAGATTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGAACGGGCTGTCTCTTGACTTTGGACTGCTCGAGCGATTGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGCGAGGTTAAGGTGCCAGAATTCACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACTCACCTGCCGAATGAACTAGCCCTGAAAATGGAAACGCCAGAAGGCCAAGCTTGTGGTCTTGTCAAGAATTTGGCGTTGATGGCGTGTATCTCTGTCGGATCATTTTCTGGGCCTGTCATTGAATTTTTGGAAGAGTGGGGTCTGGAATCACTGGAAGAGAATGCACATTCATCGACGACATTCACCAAGGTGTTCGTCAATGGCGTTTGGATCGGTGTGCATCGTGATGCGGCTAATCTCGTCAAGACGCTGAAGAGGCTGAGAAGAAGAGATGATATCAGTACTGAAGTTTCGGTTGTGAGAGATATTCGAGAAAGGGAGATGAGGGTGTATACCGATGCAGGTCGGGTTTGCAGACCGTTGTTCATCGTAGAAGACCAACA---GTTGATTTTGCAGAAGAAGCATATCAGGTGGCTTAACAACGGGATTG---------ATGATGAA---GGGCATGAG------------------------TTCAAATGGGAACAGTTGGTAAAGGGTGGTATTATTGAGCTACTTGATGCGGAGGAGGAAGAAACGGTGATGATATCGATGACGCCTGAGGACTTGGAGAATTCGCGACTTCAACAGAGGGGTATTGATCCACATGCAAATGACGGAGAATTTGACCCGGCTGCTCGTCTTAAGGCTGGGACTCAT------GCGCATACTTGGACGCATTGCGAGATTCATCCTAGTATGATTCTTGGCGTTTGCGCCAGTATCATTCCTTTCCCCGATCATAATCAGTCACCTCGTAACACC
		</sequence>
		<sequence>
			<taxon idref="Boletellus_projectellus"/>
			GGATGAGCTCAAATTTTGAATCTGGCGGTCTTT---GGCCGTCCGAGTTGTAATCTAGAGAAGCGTCTTCCGCGCTGGA--CCGTGTACAAGTCTCCTGGAAGGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACAWGGACTACCAGT-GCTAT-GTGATGCGCTCTCGACGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAACTCCATCTAAAGCTAAATACAGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGATGTCAGTCACGTCGGCCAGGGATCAACCTTGCT--TCTTTGCTG-GGTGCATTTCCTGG---TCAACGGGTCAGCATCAGTTTC-GCTCGCCGTACAATGGC-AAAGGGAACGTGGCA-CTCT-TCG-GAGTGTGTTATAGCCTTTCGTCGT-ATGCGGTGGTTGGGACTGAGGAACTCGGCACG--------------------------ACTTCG---GTCTGTGTCTAGGATG-CTGGCATAATGGCCTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACTTGCCTGCGAGTGTTTGGGTGA--AAAACCCGGGCGCGTAATGAAAGTGAAA-GTCGA-GACCTCTG-TCGT-GGAGGGCACCGACGCCCGGACC---TGAGTCTTT-GAC-AAAGGATCTGCGGTAGAGCATGCATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCATGT-ATCAGATTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGAACGAGCCGTCTCTTTG--TTGGACCGCTCG-GCGATTGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGGGAGGTTAAGGTGCCGGAATACACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACTCACCTGCCGAATGAACTAGCCCTGAAAATGGAAACTCCAGAAGGACAAGCTTGTGGTCTCGTCAAGAACCTGGCGTTGATGTCTTGTATCTCTGTCGGTTCATATTCTGCTCCCGTCATCGAGTTCTTGGAAGAATGGGGTCTCGAATCACTGGAAGAGAATGCACATTCATCGACGCCCTGCACAAAGGTTTTTGTGAACGGTGTCTGGATGGGCGTCCACCGTGATCCTGCCAACCTTGTCAAGACGATCAAAAAGCTTCGCAGAAAAGATGACATTAGTCCTGAAGTTTCTGTAGTCCGTGATATCCGTGAGAGGGAACTTCGTCTATACACTGATGCTGGGCGAGTTTGTCGACCCCTCTTCATTGTCGAAAATCAGCA---GCTTGCCCTGCAGAAGAAGCATATCAAATGGCTTAATCAAGGCTACC---------GTGATGACGATGGCGAAGAG------------------------TTCAAGTGGGAGCAGTTGGTGAAGTCAGGGATCATTGAGTTACTGGATGCGGAGGAAGAGGAAACAGTGATGATCTCCATGACGCCGGAGGATTTGGAGAATTCCAGGTTACAATCTGCGGGCATTAATCCCCAAGATCATGACGCAGATCATGACCCTGCGGCGCGACTAAAGGCTGGAATCACT------GCGCACACATGGACTCACTGCGAGATTCATCCTAGTATGATTCTCGGTGTGTGCGCGAGTATCATCCCCTTCCCTGATCATAACCAGTCACCGCGTAACACC
		</sequence>
		<sequence>
			<taxon idref="Chlorophyllum_agaricoides"/>
			-----------------------------------------------------------------------------------------------------------------------------------------------------G--GCTTT-GTGGTATGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCCAGGGATCAGCCTCACT----CTTGTGT-GGTGTACTTTCTGG---TTGACGGGTCAGCATCAATTTT-GACCGCTGGAAAAAGGC-CTGGGGAATGTGGCA--GCT-TCG--GCTGTGTTATAGCCCCTAGTCAC-ATATAGCGGTTGGGATTGAGGAACTCAGCACGCC-GCAAGG--CCGGGT-----TTCGACCACG----TTCGTGCTTAGGATG-CTGGCATAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGG--AAAACCCGAGTGCGTAATGAAAGTGAAA-GTTGA-GATCCCTG-TCGT-GGGGAGCATCGACGCCCGGACC---AGAACTTTT-GGG--ACGGATCCGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCAT---ATCAGATTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGAACGAGCCGTTTCTTGA--CTGAACCGCTYG-GCGATTGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGCGAGGTTAAGGTGCCGGAATTCACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCCCTAA----------------------------------------------??????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????
		</sequence>
		<sequence>
			<taxon idref="Hygrophorus_pudorinus"/>
			GGAAAAGCTCAAATTTAAAATCTGGTGGTCTTA-AAAGCTGCCCGAGTTGTAATCTAGAGAAGTGCTTTCCGCGTTGGA--CCGTGTACAAGTCTCTTGGAACAGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGT-GCTTTTGTGATGCGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCCAGAAATCAACCCT-----------CAG-GGTGTACTTTCTGG--TTTTACGGGTCAGCATCAATTTT-GATTGTTGGATAAAAGTCAATATTTATG---CA--TTT-TCG--GATGT---ATAGCCTTTGGTTGC-ATACAACAGTTGTGATTGAGGAACTCAGCATGCC-GCAAGG--CCGGAT--CGTTTCGATCACG--TTTACATGCTTAGGATG-CTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGG--TAAACCCGAGCGCGCAATGAAAGTGAAAAGTTGA-GATCTTTG-TCAT-GGAGAGCATCGACGCCCGGACC---AGACCTTTT-GTG--ACGGTTCCGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCAT---ATCAGATTTATGTGGTAAAGCGAATGATTAGAGGCCTTGGGGTTGAAACAACCTTAACCTATTCTCAAACTTTAAATATGTAAGAACGAGCTGTCTCTTGA--TTGGACTGCTCG-GCGATTGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGCGAGGTTAAGGTGCCGGAATTCACGCTCATCAGACACCACAAAAGGTGTTAGTTCATCTAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACTCACCTGCCGAATGAACTAGCCCTGAAAATGGAGACACCTGAAGGACAGGCTTGTGGTCTTGTCAAAAATTTGGCGCTTATGGCATGTATATCTGTGGGCTCCTATTCGGCACCCGTCATCGAATTTTTGGAGGAGTGGGGTCTGGAATCTCTGGAAGAGAACGCACACTCTCAGACGCCTTGTACGAAGGTTTTCGTCAACGGGGTGTGGATGGGCGTCCATCGCGATCCTGCAAACTTGGTCAAGACGATCAAGAAATTGCGTAGGAAGGATGACATTAGTCCAGAAGTGTCAGTCGTGCGGGATATCCGTGAGAAAGAGCTACGACTGTATACTGACGCAGGTCGCGTATGTCGACCGCTGTTCATTGTCGAGAATCAGCA---ACTCGCGTTGCAGAAAAAGCATGTCAAGTGGTTAAACCAAGGGTACC---------GTGACGATGACGGTGAGGAG------------------------TACAAGTGGGAGCAACTGATCAAAGGCGGCATAATTGAGCTATTAGACGCCGAAGAAGAGGAAACTGTTATGATTTCCATGACGCCGGAGGATCTGGAGAATTCACGACTACAGCAGAGTGGTCAAGACCCCCACGAAAACGACGGAGATTTCGACCCAGCCGTACGGCTAAAGGCAGGGATCAAT------GCTCACACTTGGACACATTGTGAAATCCACCCGAGCATGATATTGGGTATCTGCGCTAGTATTATTCCCTTCCCCGATCATAATCAGTCTCCTCGTAACACC
		</sequence>
		<sequence>
			<taxon idref="Lycoperdon"/>
			GGAAAAGCTCAAATTTAAAATCTGGCGGTCTAT---GGCTGTCCGAGTTGTAATCTAGAGAAGTAATGCCCGCGCTGGA--CCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGG-GCTTT-GTGGTATGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCTAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGCTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGACTAGAACTCAGCTTCACT----TTTGTGG-GGTGTACTTTTTAG---TTGACGGGTCAGCATCAATTCT-GACTGCTGGAAAAAGGC-TTAGGGAATGTGGCA--GCT-CCG--GCTGTGTTATAGCCCTTTGTCAC-ATACAGCTGTTGGGATTGAGGAACTCAGCACGCC-GCAAGG--CCGGGT-----TTCGACCACG----TTCGTGCTTAGGATG-CTGGCATAATGGCTTTAAGCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGG--TAAACCCGAGCGCGTAATGAAAGTGAAA-GTTGA-GATCCCTG-TCGT-GGGGAGCATCGACGCCCGGACC---TGACCTTTT-GTG--ACGGATCCGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGA------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GAAACGCCGGAAGGTCAAGCTTGCGGCCTTGTCAAGAATCTGGCCCTCATGTCATGCATTTCTGTTGGTTCATATTCAGCTCCGGTCATCGAATTTTTGGAGGAGTGGGGCTTRGAGTCGTTGGAGGAGAACGCGCATTCGGCAACACCTTGTACAAAGGTCTTCGTGAATGGTGTTTGGATGGGTGTTCACCGTGATCCTGCCAATCTCATGAAAACGATCAAGAAGTTGAGGAGAAAAGATGATATCAGTCCYGAAGTCTCCGTCGTCCGTGACATTCGAGAGAAGGAGCTTAGGATTTACACGGATGCCGGTCGTGTCTGCCGGCCGCTGTTCATTGTCGAAAACCAGCA---GTTGTTACTACAGAAGAAACACATTCGCTGGTTGAACAGTGGGTTTG---------ATGAAGAA---GGGAGTGAG------------------------TACAAATGGGAGCAAATGATAAAAGGCGGCGTCATTGAATTGTTGGATGCTGAAGAAGAGGAGACTGTCATGATTTCAATGACACCAGAAGATCTGGAGAACTCTCGACTGCAAGCTGCTGGTGTTGACCCTCATGCAAATGACGGCGATTTTGACCCTGCAGCGCGTCTCAAAGCKGGTACACAC------GCCCACACCTGGACACACTGTGAGATTCATCCGAGCATGATTCTTGGTATTTGTGCCAGCATCATTCCTTTCCCTGACCACAACCAATCTCCCCGTAATACT
		</sequence>
		<sequence>
			<taxon idref="Puccinia"/>
			GGAAAAGCCCAAATTTGTAATCTGGC--TCTTT---CAGAGTCCGAGTTGTAATTTTAAGAACTGTTTTCAGTGCTGGA--CCATGTATAAGTCTGTTGAAAAGCAGCATCATTGAGGGTGATAATCCCGTTTATGATATGGACTACCAGT-GCATT-ATGATACAGTCTCTAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAGTGGGTGGTAAATTCCATCTAAGGCTAAATATAGGTGAGAGACCGATAGCAAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAA-CAGTACGTGAAATTGTTAAAAGGGAAACACTTGAAGTTAGACTTGTTATTACTAGTTCAACC---CC----TATG----GGAGTATTCTAGTGA--TTAACAGACCAACATCAATTTTTGAGTGTTGGAGAAGGGTTTAAGGAAATGTGGCA--GTC-TTG--GCTGTGTTATAGTCCTGAGCTTTGATACAATGCTTAAGATTGAGGAAGGCAGTAAGC--ACAATTGTGTGGA------ACAAATTAATGTTCTTCTTACTGAGGATG-TTGGTGTAATAGCTTTAAATGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCTTGCAAGTATTTGGGTGCTTGAAACCCTTATGCGTAATGAAAGTAAAT-GTAAATGGGATCTG-TTA--AAAGTGCACCATTGACCAGTCC---AGATTATTT-ATATGATGGTACTGAGTAAGAGCAAGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAAGCTCGTAGCGGTTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAAAGACTCGT---ATCAGTTTTATGAGGTAAAGCGAATGATTAGAGGCCTTGGGGATGAAACATCCTTAACCTATTCTCAAACTTTAAATATGTAAGACGCTCCTGTTTCTTAA-TTGAACGTGGGCATGTGAATGAGAGTCTTTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGTGAGGTTAAGGTGCCGGAATATACACTCATCAGACACTACAAAAGGTGTTAGTTCATCTAGACAGCCGCACGGTGGCCATGGAAGTCGGAATCCGCTAAGGAGTGTGTAACAACTCAACGGCCGAATGAACTAGCCCTGAAAATGGAAACGCCGGAAGGACAGGCTTGTGGTTTGGTAAAGAACTTGGCGTTGATGTCATACATCTCTGTCGGATCCCCCTCTGCGCCAATTGTAGAATTTTTGGAAGAGTGGGGCATGGAGAGTTTGGACGAGTATTCATCAGACATGGCGAGTGGAACCAAGGTTTTTGTCAATGGAGTATGGCAGGGTGTACATCGCTCACCAGCCGATTTACTTGACACCATCAAACGACTGCGACGATGTGGAGATATTGAGCCTGAAGTTTCGGTCATGAGAGATGTACGGGAGCGAGAATTGAGAGTATTCACAGACGGCGGTCGAGTGTGCCGGCCATTGTTCATCGTTGAAAATCAGCA---ACTTTTACTGAAGAAAGAACATGTCGAATGGCTCAGCAATGGGTGCATCAGTGCAAGTGATGATCCCAACGCAGAAATTCCAGAGGATGAAGGACAACCATTTGGCTGGAGTCAGTTGGTGGCCAGAGGTATTGTAGAATATCTAGATGCCGAAGAGGAAGAAACGGTCATGATTTGCATGACCCCAGAAGAGCTAGAACAGTCCAG------AGAGTATCAACTAACTGGTCAAGTGCCCAGAGAACAATTTGATCCTGCAGCTCGACTCAAGGGCAATGTCAGCATGTATTCTCATACATGGACGCATTGTGAAATTCATCCTGCCATGATTCTCGGGATCTGTGCATCAATCATACCTTTTCCCGATCATAATCAATCTCCACGTAACACT
		</sequence>
		<sequence>
			<taxon idref="Ustilago_tritici"/>
			GGAAGAGCCCAAGATTGAAAGCTGGCG-TCTTT---GGC-GTCCGCATTGTAATCTCAAGAAGTGTTTTCCGCTTCGGA--CCATGCCTAAGTCCCTTGGAAAAGGGCATCATAGAGGGTGATAATCCCGTACATGGCATGGAGCGCCCGAAGCTTT-GTGATACGCTTTCTAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATGCCATCTAAGGCTAAATATTGGGGAGAGACCGATAGCGAACAAGTACAGTGATGGAAAGATGAAAAGAACTTTGAAAAGAGAGTTAAACAGTACGTGAAATTGCCAAAAGGGAAGGGTAGGAGGTCAGAGATGCGGTCTGGGATTCAGCCTTGCT----TTTGCTG-GGTGTTTTTCTCAG---ATTGCAGGCCAACGTCGGTTTT-GGGCGCTGGAGAAGGGT-GGAAGGAATGTGGCA-CCTC-TCG-GGGTGTGTTATAGCCTTCTACTGG-ATACAGTGACCGAGACCGAGGACAGCAGCGTACTCGCAAGA--GCGGGC----CTTCGGGCACC----TTTACGCTTAGGGCG-TTGGCATAATGGCCCTCTACCACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGTATGCGAGTCTTTGGGTGG--CAAACCCATAGGCGCAATGAAAGTGAA---TTCA-GGTGGGAT-CCGC-AAGGTGCACCATCGACCGATCCTCACGTCTTTTT-AAGTCGTGGATTTGAGTAAGAGCATACCTGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGGTTCTGACGTGCAAATCGATCGTCAAATTTGGGTATAGGGGCGAAAGACTAATCGAACCATCTAGTAGCTGGTTCCTGCCGAAGTTTCCCTCAGGATAGCAGAAACTCGC---ATCAGTTTTATGAGGTAAAGCGAATGATTAGAGGCCTTGGGGAAGTAACTTCCTTAACCTATTCTCAAACTTTAAATGTGTAAGAAGCCCTTGTTACTTAA-GTGAACGAGGGCATGCGAATGAGAGTTTCTAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGAACGTTGGGTTAAGGTGCCAAAGTATACGCTCATCAGATACCAGAAAAGGTGTTATTTAGTCTAGACAGTGGGACGGTGGCCATGGAAGTCGGAAACCGCTAAGGAGTGTGTAACAACTCACCCACCGAATTAAGTAGCCCTGAAAATGGAGACGCCAGAAGGTCAGGCGTGTGGTTTGGTCAAGAACCTCAGTCTGATGGCTACCGTCACTGTCGGTACGCCCTCAGCACCTATTGTCGAGTTCTTGGAGGAGTTCGGTCTCGACAGTTTGGTCGACATGCAGCTTGCCCACGCCAAGGCGACCAAGATCTTTGTCAATGGTGTCTGGATGGGCACGCACGACGACCCTGCTCAGTTGGTCGACACTCTTCGCGACCTTCGTCGAAAGGATGATATCTCGCACGAAGTCTCCGTCGTTCGTGACATCCGTGAACGAGAGCTCCGTATCTACACCGATGCCTCTCGTGTCTTGCGTCCTGTCTTCATCGTCAACCCTCACGACATGACCTTGTTGATCAAGAAGCGGCACGTAGAGATGATCGGTCAGACCA---------TTCCACAGACCGGCGAAGAG------------------------TTCCGATGGACTCACCTTGTCCAGGAAGGTGTCATCGAGTACCTCGACGCCGAAGAAGAGGAGTCGGTTCTAATTTGCATGTCAACCACCGATTTGGAGCAGTCGAG---GGAGTACAAGGCCCGCAACGGACAGATCAACCTCAACTCGGCGGATCCCTCGGCTCGACTCAAGTCCATTCATACGATTGCACCCGATACATGGACCCATTGCGAGATTCATCCTGCCATGGTCCTCGGTATCTGTGCTAGTATCGTTCCYTTCCCYGACCACAACCAATCGCCGAGAAACGTT
		</sequence>
	</alignment>
	
	<!-- The unique patterns for all positions                                   -->
	<!-- npatterns=781                                                           -->
	<patterns id="patterns" from="1">
		<alignment idref="alignment"/>
	</patterns>
	
	
	<!-- A prior on the distribution node heights defined given                  -->
	<!-- a Yule speciation process (a pure birth process).                       -->
	<yuleModel id="yule" units="substitutions">
		<birthRate>
			<parameter id="yule.birthRate" value="1.0" lower="0.0" upper="1000000.0"/>
		</birthRate>
	</yuleModel>
	<!-- This is a simple constant population size coalescent model              -->
	<!-- that is used to generate an initial tree for the chain.                 -->
	<constantSize id="initialDemo" units="substitutions">
		<populationSize>
			<parameter id="initialDemo.popSize" value="100.0"/>
		</populationSize>
	</constantSize>
	
	<!-- Generate a random starting tree under the coalescent process            -->
	<coalescentTree id="startingTree">
		<constrainedTaxa>
			<taxa idref="taxa"/>
			<tmrca monophyletic="true">
				<taxa idref="Ag+Chloro"/>
			</tmrca>
			<tmrca monophyletic="true">
				<taxa idref="Agaricaceae"/>
			</tmrca>
			<tmrca monophyletic="true">
				<taxa idref="Agaricales"/>
			</tmrca>
			<tmrca monophyletic="true">
				<taxa idref="Agaricomycetes"/>
			</tmrca>
			<tmrca monophyletic="true">
				<taxa idref="Agaricomycetidae"/>
			</tmrca>
			<tmrca monophyletic="true">
				<taxa idref="Agaricus"/>
			</tmrca>
			<tmrca monophyletic="true">
				<taxa idref="Auritella"/>
			</tmrca>
			<tmrca monophyletic="true">
				<taxa idref="Ag+Ustil"/>
			</tmrca>
		</constrainedTaxa>
		<constantSize idref="initialDemo"/>
	</coalescentTree>
	
	<treeModel id="treeModel">
		<coalescentTree idref="startingTree"/>
		<rootHeight>
			<parameter id="treeModel.rootHeight"/>
		</rootHeight>
		<nodeHeights internalNodes="true">
			<parameter id="treeModel.internalNodeHeights"/>
		</nodeHeights>
		<nodeHeights internalNodes="true" rootNode="true">
			<parameter id="treeModel.allInternalNodeHeights"/>
		</nodeHeights>
	</treeModel>
	
	<speciationLikelihood id="speciation">
		<model>
			<yuleModel idref="yule"/>
		</model>
		<speciesTree>
			<treeModel idref="treeModel"/>
		</speciesTree>
	</speciationLikelihood>
	
	<!-- The uncorrelated relaxed clock (Drummond, Ho, Phillips & Rambaut, 2006) -->
	<discretizedBranchRates id="branchRates">
		<treeModel idref="treeModel"/>
		<distribution>
			<logNormalDistributionModel meanInRealSpace="true">
				<mean>
					<parameter id="ucld.mean" value="0.027" lower="0.0" upper="100.0"/>
				</mean>
				<stdev>
					<parameter id="ucld.stdev" value="0.1" lower="0.0" upper="10.0"/>
				</stdev>
			</logNormalDistributionModel>
		</distribution>
		<rateCategories>
			<parameter id="branchRates.categories" dimension="22"/>
		</rateCategories>
	</discretizedBranchRates>
	
	<rateStatistic id="meanRate" name="meanRate" mode="mean" internal="true" external="true">
		<treeModel idref="treeModel"/>
		<discretizedBranchRates idref="branchRates"/>
	</rateStatistic>
	
	<rateStatistic id="coefficientOfVariation" name="coefficientOfVariation" mode="coefficientOfVariation" internal="true" external="true">
		<treeModel idref="treeModel"/>
		<discretizedBranchRates idref="branchRates"/>
	</rateStatistic>
	
	<rateCovarianceStatistic id="covariance" name="covariance">
		<treeModel idref="treeModel"/>
		<discretizedBranchRates idref="branchRates"/>
	</rateCovarianceStatistic>
	
	<!-- The general time reversible (GTR) substitution model                    -->
	<gtrModel id="gtr">
		<frequencies>
			<frequencyModel dataType="nucleotide">
				<alignment idref="alignment"/>
				<frequencies>
					<parameter id="gtr.frequencies" dimension="4"/>
				</frequencies>
			</frequencyModel>
		</frequencies>
		<rateAC>
			<parameter id="gtr.ac" value="1.0" lower="0.0" upper="Infinity"/>
		</rateAC>
		<rateAG>
			<parameter id="gtr.ag" value="1.0" lower="0.0" upper="Infinity"/>
		</rateAG>
		<rateAT>
			<parameter id="gtr.at" value="1.0" lower="0.0" upper="Infinity"/>
		</rateAT>
		<rateCG>
			<parameter id="gtr.cg" value="1.0" lower="0.0" upper="Infinity"/>
		</rateCG>
		<rateGT>
			<parameter id="gtr.gt" value="1.0" lower="0.0" upper="Infinity"/>
		</rateGT>
	</gtrModel>
	
	<!-- site model                                                              -->
	<siteModel id="siteModel">
		<substitutionModel>
			<gtrModel idref="gtr"/>
		</substitutionModel>
		<gammaShape gammaCategories="4">
			<parameter id="siteModel.alpha" value="0.5" lower="0.0" upper="100.0"/>
		</gammaShape>
		<proportionInvariant>
			<parameter id="siteModel.pInv" value="0.5" lower="0.0" upper="1.0"/>
		</proportionInvariant>
	</siteModel>
	
	<treeLikelihood id="treeLikelihood">
		<patterns idref="patterns"/>
		<treeModel idref="treeModel"/>
		<siteModel idref="siteModel"/>
		<discretizedBranchRates idref="branchRates"/>
	</treeLikelihood>
	
	
	<tmrcaStatistic id="tmrca(Ag+Chloro)">
		<mrca>
			<taxa idref="Ag+Chloro"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Ag+Chloro)">
		<mrca>
			<taxa idref="Ag+Chloro"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<tmrcaStatistic id="tmrca(Agaricaceae)">
		<mrca>
			<taxa idref="Agaricaceae"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Agaricaceae)">
		<mrca>
			<taxa idref="Agaricaceae"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<tmrcaStatistic id="tmrca(Agaricales)">
		<mrca>
			<taxa idref="Agaricales"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Agaricales)">
		<mrca>
			<taxa idref="Agaricales"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<tmrcaStatistic id="tmrca(Agaricomycetes)">
		<mrca>
			<taxa idref="Agaricomycetes"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Agaricomycetes)">
		<mrca>
			<taxa idref="Agaricomycetes"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<tmrcaStatistic id="tmrca(Agaricomycetidae)">
		<mrca>
			<taxa idref="Agaricomycetidae"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Agaricomycetidae)">
		<mrca>
			<taxa idref="Agaricomycetidae"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<tmrcaStatistic id="tmrca(Agaricus)">
		<mrca>
			<taxa idref="Agaricus"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Agaricus)">
		<mrca>
			<taxa idref="Agaricus"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<tmrcaStatistic id="tmrca(Auritella)">
		<mrca>
			<taxa idref="Auritella"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Auritella)">
		<mrca>
			<taxa idref="Auritella"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<tmrcaStatistic id="tmrca(Ag+Ustil)">
		<mrca>
			<taxa idref="Ag+Ustil"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</tmrcaStatistic>
	<monophylyStatistic id="monophyly(Ag+Ustil)">
		<mrca>
			<taxa idref="Ag+Ustil"/>
		</mrca>
		<treeModel idref="treeModel"/>
	</monophylyStatistic>
	<operators id="operators">
		<scaleOperator scaleFactor="0.75" weight="1">
			<parameter idref="gtr.ac"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="1">
			<parameter idref="gtr.ag"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="1">
			<parameter idref="gtr.at"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="1">
			<parameter idref="gtr.cg"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="1">
			<parameter idref="gtr.gt"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="1">
			<parameter idref="siteModel.alpha"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="1">
			<parameter idref="siteModel.pInv"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="3">
			<parameter idref="ucld.mean"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="3">
			<parameter idref="ucld.stdev"/>
		</scaleOperator>
		<upDownOperator scaleFactor="0.75" weight="3">
			<up>
				<parameter idref="ucld.mean"/>
			</up>
			<down>
				<parameter idref="treeModel.allInternalNodeHeights"/>
			</down>
		</upDownOperator>
		<swapOperator size="1" weight="30" autoOptimize="false">
			<parameter idref="branchRates.categories"/>
		</swapOperator>
		<scaleOperator scaleFactor="0.75" weight="3">
			<parameter idref="yule.birthRate"/>
		</scaleOperator>
		<scaleOperator scaleFactor="0.75" weight="3">
			<parameter idref="treeModel.rootHeight"/>
		</scaleOperator>
		<uniformOperator weight="30">
			<parameter idref="treeModel.internalNodeHeights"/>
		</uniformOperator>
		<subtreeSlide size="0.1" gaussian="true" weight="15">
			<treeModel idref="treeModel"/>
		</subtreeSlide>
		<narrowExchange weight="15">
			<treeModel idref="treeModel"/>
		</narrowExchange>
		<wideExchange weight="3">
			<treeModel idref="treeModel"/>
		</wideExchange>
		<wilsonBalding weight="3">
			<treeModel idref="treeModel"/>
		</wilsonBalding>
	</operators>
	
	<mcmc id="mcmc" chainLength="2000000" autoOptimize="true">
		<posterior id="posterior">
			<prior id="prior">
				<booleanLikelihood>
					<monophylyStatistic idref="monophyly(Agaricales)"/>
					<monophylyStatistic idref="monophyly(Ag+Ustil)"/>
					<monophylyStatistic idref="monophyly(Agaricus)"/>
					<monophylyStatistic idref="monophyly(Ag+Chloro)"/>
					<monophylyStatistic idref="monophyly(Agaricomycetes)"/>
					<monophylyStatistic idref="monophyly(Agaricomycetidae)"/>
					<monophylyStatistic idref="monophyly(Agaricaceae)"/>
					<monophylyStatistic idref="monophyly(Auritella)"/>
				</booleanLikelihood>
				<jeffreysPrior>
					<parameter idref="gtr.ac"/>
				</jeffreysPrior>
				<jeffreysPrior>
					<parameter idref="gtr.ag"/>
				</jeffreysPrior>
				<jeffreysPrior>
					<parameter idref="gtr.at"/>
				</jeffreysPrior>
				<jeffreysPrior>
					<parameter idref="gtr.cg"/>
				</jeffreysPrior>
				<jeffreysPrior>
					<parameter idref="gtr.gt"/>
				</jeffreysPrior>
				<normalPrior mean="430.0" stdev="50.0">
					<statistic idref="tmrca(Ag+Ustil)"/>
				</normalPrior>
				<speciationLikelihood idref="speciation"/>
			</prior>
			<likelihood id="likelihood">
				<treeLikelihood idref="treeLikelihood"/>
			</likelihood>
		</posterior>
		<operators idref="operators"/>
		<log id="screenLog" logEvery="2000">
			<column label="Posterior" dp="4" width="12">
				<posterior idref="posterior"/>
			</column>
			<column label="Prior" dp="4" width="12">
				<prior idref="prior"/>
			</column>
			<column label="Likelihood" dp="4" width="12">
				<likelihood idref="likelihood"/>
			</column>
			<column label="Root Height" sf="6" width="12">
				<parameter idref="treeModel.rootHeight"/>
			</column>
			<column label="Rate" sf="6" width="12">
				<rateStatistic idref="meanRate"/>
			</column>
		</log>
		<log id="fileLog" logEvery="2000" fileName="430My_TOTAL.log">
			<posterior idref="posterior"/>
			<prior idref="prior"/>
			<likelihood idref="likelihood"/>
			<rateStatistic idref="meanRate"/>
			<parameter idref="treeModel.rootHeight"/>
			<tmrcaStatistic idref="tmrca(Ag+Chloro)"/>
			<tmrcaStatistic idref="tmrca(Agaricaceae)"/>
			<tmrcaStatistic idref="tmrca(Agaricales)"/>
			<tmrcaStatistic idref="tmrca(Agaricomycetes)"/>
			<tmrcaStatistic idref="tmrca(Agaricomycetidae)"/>
			<tmrcaStatistic idref="tmrca(Agaricus)"/>
			<tmrcaStatistic idref="tmrca(Auritella)"/>
			<tmrcaStatistic idref="tmrca(Ag+Ustil)"/>
			<parameter idref="yule.birthRate"/>
			<parameter idref="gtr.ac"/>
			<parameter idref="gtr.ag"/>
			<parameter idref="gtr.at"/>
			<parameter idref="gtr.cg"/>
			<parameter idref="gtr.gt"/>
			<parameter idref="siteModel.alpha"/>
			<parameter idref="siteModel.pInv"/>
			<parameter idref="ucld.mean"/>
			<parameter idref="ucld.stdev"/>
			<rateStatistic idref="coefficientOfVariation"/>
			<rateCovarianceStatistic idref="covariance"/>
			<treeLikelihood idref="treeLikelihood"/>
			<speciationLikelihood idref="speciation"/>
		</log>
		<logTree id="treeFileLog" logEvery="2000" nexusFormat="true" fileName="430My_TOTAL.trees" sortTranslationTable="true">
			<treeModel idref="treeModel"/>
			<discretizedBranchRates idref="branchRates"/>
			<posterior idref="posterior"/>
		</logTree>
		<logTree id="substTreeFileLog" logEvery="2000" nexusFormat="true" fileName="430My_TOTAL(subst).trees" branchLengths="substitutions">
			<treeModel idref="treeModel"/>
			<discretizedBranchRates idref="branchRates"/>
		</logTree>
	</mcmc>
	
	<report>
		<property name="timer">
			<object idref="mcmc"/>
		</property>
	</report>
	
</beast>
