# This output was generated with AUGUSTUS (version 3.2.2).
# AUGUSTUS is a gene prediction tool written by M. Stanke (mario.stanke@uni-greifswald.de),
# O. Keller, S. König, L. Gerischer and L. Romoth.
# Please cite: Mario Stanke, Mark Diekhans, Robert Baertsch, David Haussler (2008),
# Using native and syntenically mapped cDNA alignments to improve de novo gene finding
# Bioinformatics 24: 637-644, doi 10.1093/bioinformatics/btn013
#
#----- prediction for species 'rheMac3' -----
#
#----- prediction on sequence range chr20:82437-138066 (55630bp) -----
#
# start gene g1
chr20	AUGUSTUS	gene	82873	87146	0	+	.	g1
chr20	AUGUSTUS	transcript	82873	87146	.	+	.	g1.t1
chr20	AUGUSTUS	CDS	82873	83003	0.97	+	2	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	82873	83003	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	CDS	83478	83610	1	+	0	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	83478	83610	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	CDS	83805	83934	1	+	2	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	83805	83934	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	CDS	84326	84466	1	+	1	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	84326	84466	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	CDS	84760	84835	1	+	1	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	84760	84835	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	CDS	85068	85223	1	+	0	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	85068	85223	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	CDS	85669	85771	1	+	0	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	85669	85771	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	CDS	85866	86077	1	+	2	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	exon	85866	87146	.	+	.	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	stop_codon	86075	86077	.	+	0	transcript_id "g1.t1"; gene_id "g1";
chr20	AUGUSTUS	tts	87146	87146	.	+	.	transcript_id "g1.t1"; gene_id "g1";
# protein sequence = [ETLWNHSSSFSRNASILSPLLQVPDVDSDGAPDLLVFTQEQEEVSGHLYSGSTGHQIGLRGGLGVDGESGFLLHVTRT
# GAHYILFPCASSLCGCSVKGLYEKVTGRDGPFKNDPHWESMLNATTRRMLSHSSGAVRYLMHVPGNTGADVLLVGSEGFVLLDGQELTPRWTPKAAHV
# LRKPIFGHYKPDTLAVVVENGTGTNRQILFLDLGTGAVLCSLALPSLPGGPLSASLPTADHRSAFFFWGLHELGSTSETETGEARHSLYMFHPTLPRV
# LLELANVSTHIVAFDAVLFEPSRHAAYILLTGPADSEAPGLVSVIKHKVRDLVPSSRVVHLGEGEPDSDQAIRDRFSRLRYRREA]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 94.1
# CDS exons: 8/8
#      W:   8 
# CDS introns: 7/8
#      E:   7 
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 1/1
#      W:   1 
# hint groups fully obeyed: 131
#      E:   7 
#      W: 124 
# incompatible hint groups: 145
#      W: 145 
# end gene g1
###
# start gene g2
chr20	AUGUSTUS	gene	88892	97523	0	-	.	g2
chr20	AUGUSTUS	transcript	88892	97523	.	-	.	g2.t1
chr20	AUGUSTUS	tts	88892	88892	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	88892	90276	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	stop_codon	90162	90164	.	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	90162	90276	1	-	1	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	90396	90478	1	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	90396	90478	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	92556	92694	1	-	1	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	92556	92694	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	92777	92864	1	-	2	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	92777	92864	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	93043	93158	1	-	1	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	93043	93158	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	93252	93365	1	-	1	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	93252	93365	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	93458	93519	1	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	93458	93519	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	93599	93628	0.43	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	93599	93628	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	94961	95029	.	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	94961	95029	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	95574	95655	.	-	1	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	95574	95655	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	95842	95918	0.99	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	95842	95918	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	96122	96180	.	-	2	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	96122	96180	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	96293	96344	.	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	96293	96344	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	97055	97161	.	-	2	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	97055	97161	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	97356	97406	.	-	2	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	97356	97406	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	CDS	97475	97523	.	-	0	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	exon	97475	97523	.	-	.	transcript_id "g2.t1"; gene_id "g2";
chr20	AUGUSTUS	start_codon	97521	97523	.	-	0	transcript_id "g2.t1"; gene_id "g2";
# protein sequence = [MRSQRLLVTVIPHAVTGGDVVQWLTQKFCISEEEARHLGAVLVQHGYIYPLRDPRSLVLRPDETPYRFQTPYFWTSTL
# WPAAELDYAIYLAKKNIRKQGTLVDYEKECYDRLHTKINHAWDLVLMQAREQLRAAKQRRKGDRLVIACQEQTYWLVNRPPPGAPSVLEQSPGRGSCA
# ASRVHMTKRADFYKQEIEYCRRALGRTRVKSSVCLEAYLSFCGQRGPHDPLVSGCLPSNPWISDDAAYWVMNAPTVVAPTKLRVERWGFSFRELLEDP
# VGRAHFMDFLGKEFSGENLSFWEACEELRYGAQAQVPTLVDAVYQQFLAPGAARWVNIDSRTMERTLEGLRQPHRYVLDDAQLHIYMLMKKDSYPRFL
# KSDMYKGLLAEAGIPLETKKRVFPFSRRPRHSSPSPALLPTPVEPTAAGGPGGGDGVA]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 88.9
# CDS exons: 15/16
#      W:  15 
# CDS introns: 8/10
#      E:   8 
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 1/1
#      W:   1 
# hint groups fully obeyed: 139
#      E:   8 
#      W: 131 
# incompatible hint groups: 283
#      E:   1 
#      W: 282 
# end gene g2
###
# start gene g3
chr20	AUGUSTUS	gene	106094	107444	0	+	.	g3
chr20	AUGUSTUS	transcript	106094	107444	.	+	.	g3.t1
chr20	AUGUSTUS	start_codon	106094	106096	.	+	0	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	CDS	106094	106106	0.04	+	0	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	exon	106094	106106	.	+	.	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	CDS	106283	106359	1	+	2	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	exon	106283	106359	.	+	.	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	CDS	106454	106468	0.01	+	0	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	exon	106454	106468	.	+	.	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	CDS	107112	107264	0.93	+	0	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	exon	107112	107444	.	+	.	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	stop_codon	107262	107264	.	+	0	transcript_id "g3.t1"; gene_id "g3";
chr20	AUGUSTUS	tts	107444	107444	.	+	.	transcript_id "g3.t1"; gene_id "g3";
# protein sequence = [MDLTGDLAVLKDQVFVLKEGVDYRVKITFKVHREIEYEFVTPVEEAPRGALVRGPYLVVSLFTDDDRTHHLSWEWGLR
# ISQDWKD]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 75
# CDS exons: 3/4
#      W:   3 
# CDS introns: 2/3
#      E:   2 
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 1/1
#      W:   1 
# hint groups fully obeyed: 31
#      E:   2 
#      W:  29 
# incompatible hint groups: 10
#      W:  10 
# end gene g3
###
# start gene g4
chr20	AUGUSTUS	gene	107598	111253	0	+	.	g4
chr20	AUGUSTUS	transcript	107598	111253	.	+	.	g4.t1
chr20	AUGUSTUS	start_codon	107598	107600	.	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	107598	107793	1	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	107598	107793	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	108785	108991	1	+	2	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	108785	108991	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	109057	109190	1	+	2	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	109057	109190	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	109272	109409	0.83	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	109272	109409	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	109478	109594	0.99	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	109478	109594	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	109706	109831	0.91	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	109706	109831	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	109938	110135	1	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	109938	110135	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	110391	110511	1	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	110391	110511	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	110592	110773	0.98	+	2	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	110592	110773	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	110870	110980	0.98	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	110870	110980	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	CDS	111103	111147	1	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	exon	111103	111253	.	+	.	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	stop_codon	111145	111147	.	+	0	transcript_id "g4.t1"; gene_id "g4";
chr20	AUGUSTUS	tts	111253	111253	.	+	.	transcript_id "g4.t1"; gene_id "g4";
# protein sequence = [MSRQLLPVLLLLLRASCPWGQEQGPKSPSEEPPEEEIPKEDGILVLSRHTLGLALREHPALLVEFYAPWCGHCKALAP
# EYSKAAALLAAESTAVTLSKVDGPAQPELAEEFGVTEYPTLKFFRSGNRTHPEEYTGPREAEGIAEWLRRRVGPSALRLEDEAAAQALIDGRDLVVIG
# FFQDLQDEDVATFLALARDALDMTFGLTDRPRLFEQFGLTKDTVVLFKKFDEGRADFPVDEELGLDLGDLSRFLVTHSMHLVTEFNSQTSPKIFAARI
# LNHLLLFVNQTLAAHRELLAGFGEAAPHFRGQVLFVVVDVAADNEHVLQYFGLKAEAAPTLRFINVETTKKYAPVDGGPVTAASVTAFCHAVLNGQVK
# PYLLSQEVPPDWDQRPVKTLVGKNFEQVAFDETKNVFVKFYAPWCTHCKEMAPAWEALAEKYQDHEDIIIAQLDATANELDAFAVHSFPTLKYFPAGP
# GRKVIEYKSARDLETLSKFLDNGGAVPTEEPTEEPAAPFPEPRANSTVGSKEEL]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 40.9
# CDS exons: 6/11
#      W:   6 
# CDS introns: 3/10
#      E:   3 
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/1
# hint groups fully obeyed: 3
#      E:   3 
# incompatible hint groups: 72
#      W:  72 
# end gene g4
###
# start gene g5
chr20	AUGUSTUS	gene	112134	115198	0	-	.	g5
chr20	AUGUSTUS	transcript	112134	115198	.	-	.	g5.t1
chr20	AUGUSTUS	stop_codon	112134	112136	.	-	0	transcript_id "g5.t1"; gene_id "g5";
chr20	AUGUSTUS	CDS	112134	112260	1	-	1	transcript_id "g5.t1"; gene_id "g5";
chr20	AUGUSTUS	exon	112134	112260	.	-	.	transcript_id "g5.t1"; gene_id "g5";
chr20	AUGUSTUS	CDS	113467	113634	1	-	1	transcript_id "g5.t1"; gene_id "g5";
chr20	AUGUSTUS	exon	113467	113634	.	-	.	transcript_id "g5.t1"; gene_id "g5";
chr20	AUGUSTUS	CDS	115080	115198	0.55	-	0	transcript_id "g5.t1"; gene_id "g5";
chr20	AUGUSTUS	exon	115080	115198	.	-	.	transcript_id "g5.t1"; gene_id "g5";
chr20	AUGUSTUS	start_codon	115196	115198	.	-	0	transcript_id "g5.t1"; gene_id "g5";
# protein sequence = [MELSETEYVRPEGPPGPAHPAQASQARSHGRAAVLGPELRTRSQRKAGGGSAQPCDSIVVAYYFCGEPIPYRTLVRGR
# AVTLGQFKELLTKKGSYRYYFKKVSDEFDCGVVFEEVREDEAVLPVFEEKIIGKVEKVD]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 80
# CDS exons: 3/3
#      W:   3 
# CDS introns: 1/2
#      E:   1 
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 1
#      E:   1 
# incompatible hint groups: 66
#      W:  66 
# end gene g5
###
# start gene g6
chr20	AUGUSTUS	gene	116332	135343	0	-	.	g6
chr20	AUGUSTUS	transcript	116332	135343	.	-	.	g6.t1
chr20	AUGUSTUS	tts	116332	116332	.	-	.	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	exon	116332	117578	.	-	.	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	stop_codon	117269	117271	.	-	0	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	CDS	117269	117578	1	-	1	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	CDS	121067	121237	1	-	1	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	exon	121067	121237	.	-	.	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	CDS	121645	122174	.	-	0	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	exon	121645	122174	.	-	.	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	CDS	129055	129192	0.91	-	0	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	exon	129055	129192	.	-	.	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	CDS	135293	135343	0.74	-	0	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	exon	135293	135343	.	-	.	transcript_id "g6.t1"; gene_id "g6";
chr20	AUGUSTUS	start_codon	135341	135343	.	-	0	transcript_id "g6.t1"; gene_id "g6";
# protein sequence = [MQESVQVNGRVPLPHIPRTYRVPKEVRVEPQKFAEELIHRLEAVQRTREAEEKLEERLKRVRMEEEGEDGDPSSGLPG
# PCHKLPPAPAWHHFPPRCVDVGCAGLRDAHEENPESILDEHVQRVLRTPGRQSPGPGHRSPDSGHMAKMPVALGSAASGHGKHAPKSGVKLDAAGLHH
# HRHVHHHVHHSTARPKEQVEAEAARRAQSSFAWGPEPHSHGAKSRGYSESVGAAPNASDGLAHSGKAGMACKRNAKKAESGKSASAEVPGASEDAEKN
# QKIMQWIIEGEKEISRHRRTGHGSSGTRKPQPHENSRPLSLERPAAVHPWAGPQLRTSVQPSHLFIQDPTMPPHPAPNPLTQLEEARRRLEEEEKRAS
# RAPSKQRYGRIVGWGGSWELPQHHSWG]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 80
# CDS exons: 5/5
#      W:   5 
# CDS introns: 2/4
#      E:   2 
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 1/1
#      W:   1 
# hint groups fully obeyed: 95
#      E:   2 
#     RM:   5 
#      W:  88 
# incompatible hint groups: 250
#      W: 250 
# end gene g6
###
