# 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 'bosTau8' -----
#
#----- prediction on sequence range chr25:46974-53142 (6169bp) -----
#
# (none)
#----- prediction on sequence range chr25:51361-89467 (38107bp) -----
#
# start gene g1
chr25	AUGUSTUS	gene	58422	65963	0	+	.	g1
chr25	AUGUSTUS	transcript	58422	65963	.	+	.	g1.t1
chr25	AUGUSTUS	start_codon	58422	58424	.	+	0	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	58422	58686	0.61	+	0	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	62383	62502	0.86	+	2	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	62697	62888	1	+	2	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	63568	63698	1	+	2	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	63892	64024	1	+	0	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	64168	64297	1	+	2	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	64599	64739	1	+	1	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	64953	65028	0.98	+	1	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	65133	65288	0.05	+	0	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	65561	65663	0.73	+	0	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	CDS	65752	65963	1	+	2	transcript_id "g1.t1"; gene_id "g1";
chr25	AUGUSTUS	stop_codon	65961	65963	.	+	0	transcript_id "g1.t1"; gene_id "g1";
# protein sequence = [MTDGKDLEAEIHPLKSENRKVPENAGALAGKEPRGTPAPQTRLSHCRTAAFFLSLFACLLVVFVVSFIIPCPDRPALQ
# GVWRIDYNAAVAYDFLAAEDVNKDKIQDILFLYKNTNSSRGNSSFSCADEGFSCPCTFVAAVSGASGSVLWERPVAQDRAFVECGILQPRGSAAPSAC
# VVLGRPGSLVAVDTLTGKTLWSQPSSFGGNASVLSPLLRVPDLDADGAPDLLVLIQEENQVNGSIYSGGTGQQVSPPDSLGVDGTSGSILHVTRAGAH
# YVLIPCGTALCSRSVKGLYEKVSRRDSPLKSDPLWEDMLSAASHRLVVHSSGAIRYLMNVPGKAGDDLLLVSTEAYMLLDGQDLTPRWTFGTTQVLRK
# PVLGYYKPDTPAVLVENGTGPDRQVLLLDLGSGAVLWSQALPGLPGDPPSASLPTADHRSAFFFWGIHEPTDSNQTEPGAAGRRLYMLHPTLPGVLLE
# LDNVSVPIVAFQVVLLEPGRHAACILLTGPASPSPPGLVSVTKHKVQDLVLAGRVVHLAEGGAESDQAVRDRLSRLRYRSEA]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/11
# CDS introns: 0/10
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 8
#     RM:   8 
# incompatible hint groups: 0
# end gene g1
###
# start gene g2
chr25	AUGUSTUS	gene	68167	75118	0	-	.	g2
chr25	AUGUSTUS	transcript	68167	75118	.	-	.	g2.t1
chr25	AUGUSTUS	stop_codon	68167	68169	.	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	68167	68275	0.29	-	1	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	68349	68431	0.49	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	70127	70265	0.99	-	1	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	70343	70430	1	-	2	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	70522	70637	0.97	-	1	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	70712	70825	0.86	-	1	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	70933	70994	0.08	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	71069	71098	0.01	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	71895	71963	0.01	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	72985	73066	0.04	-	1	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	73184	73260	0.69	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	73420	73478	0.72	-	2	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	73592	73643	0.75	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	74245	74351	0.37	-	2	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	74456	74506	0.07	-	2	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	74587	74683	0.01	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	CDS	75056	75118	0.01	-	0	transcript_id "g2.t1"; gene_id "g2";
chr25	AUGUSTUS	start_codon	75116	75118	.	-	0	transcript_id "g2.t1"; gene_id "g2";
# protein sequence = [MAASPAPLGGHPRVQRPHLSKMERMVVTMQDPDQGVRMRSQRLLVTVIPHAVNGSDIVEWLMQKYSIAEDEALHLGSL
# LVQHGYLYPLRDPRRLELRPDETPYRFQTPYFWTSTLWPAAELDYAIYLAKKNIRKQGALVDHEKEHYQQLHRKINHAWDLVMMQAREQLRAAKQRRK
# GDRLVIACQEQTYWLVNRPPPGAPSVLEQGPGRGPCTAGRVPMTKTLDFYRREVECLRRALGRARVKSSTCLEAYLKFSSQHGPHDPIMSGCLPSNPW
# VTDDDAYWAMNAPSAAVPTRLRVEQWAFSFRELLEDPVGRAHFMDFLGKEFSAENLSFWEACEELRHGGQAQVPALVDAVYQQFLAPGAARWVNIDSR
# TMEQTLAGLTQPHRHVLDDAQRHIYLLMKKDSYPRFLKSDLYRDLLAEAVVPLETKRRVFPFTRKPRHSSPSPALLPASASGEPVGGDGDGET]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/17
# CDS introns: 0/16
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 6
#     RM:   6 
# incompatible hint groups: 0
# end gene g2
###
# start gene g3
chr25	AUGUSTUS	gene	75392	85347	0	+	.	g3
chr25	AUGUSTUS	transcript	75392	85347	.	+	.	g3.t1
chr25	AUGUSTUS	start_codon	75392	75394	.	+	0	transcript_id "g3.t1"; gene_id "g3";
chr25	AUGUSTUS	CDS	75392	75563	0.02	+	0	transcript_id "g3.t1"; gene_id "g3";
chr25	AUGUSTUS	CDS	84279	84458	0.11	+	2	transcript_id "g3.t1"; gene_id "g3";
chr25	AUGUSTUS	CDS	84529	84612	0.98	+	2	transcript_id "g3.t1"; gene_id "g3";
chr25	AUGUSTUS	CDS	84845	84921	1	+	2	transcript_id "g3.t1"; gene_id "g3";
chr25	AUGUSTUS	CDS	85001	85064	1	+	0	transcript_id "g3.t1"; gene_id "g3";
chr25	AUGUSTUS	CDS	85148	85347	1	+	2	transcript_id "g3.t1"; gene_id "g3";
chr25	AUGUSTUS	stop_codon	85345	85347	.	+	0	transcript_id "g3.t1"; gene_id "g3";
# protein sequence = [MDEDSGKAGAQIQERTLGGERLGRGDAGEGALGGGAVTPPPYLLGARRSAVRGLWGLVLLTDKEGGQLPPEEALDEAV
# PEYRAPGKKSLLEIQQLDPDDESLVKYKRALLGPVLPAVDPSLPNVQVTRLTLISEQAPGPIVMDLTGELAALKNQVFVLKEGVDYKVKITFKVNKEI
# VSGLKCLHHTYRHGLRVDKAVYMVGSYGPSAQEYEFVTPVEEAPRGALVRGAYVVTSFFTDDDRTAHLSWEWGLYVCQDWER]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/6
# CDS introns: 0/5
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 14
#     RM:  14 
# incompatible hint groups: 0
# end gene g3
###
# start gene g4
chr25	AUGUSTUS	gene	85689	88648	0	+	.	g4
chr25	AUGUSTUS	transcript	85689	88648	.	+	.	g4.t1
chr25	AUGUSTUS	start_codon	85689	85691	.	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	85689	85914	0.99	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	86479	86685	0.98	+	2	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	86765	86898	1	+	2	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	86972	87109	0.86	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	87183	87299	1	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	87377	87502	1	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	87571	87768	0.99	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	87849	87969	0.96	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	88046	88227	0.83	+	2	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	88341	88451	0.75	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	CDS	88574	88648	0.97	+	0	transcript_id "g4.t1"; gene_id "g4";
chr25	AUGUSTUS	stop_codon	88646	88648	.	+	0	transcript_id "g4.t1"; gene_id "g4";
# protein sequence = [MDGQFLPVLVLLLGASGLCGQGLGPRGPLEEPPEEKPPEEKPPEEEPPEEDGVLVLSRQTLGQALQEHPALLVEFYAP
# WCGHCRALAPEYSKAAALLAAESARVTLAKVDGPAEPELAEEFAVTEYPTLKFFREGNRTHPEEYTGPREAEGIAEWLRRRVGPSARQLEDEEDIRAL
# TDTRDVVVVGFFQDLQDRDVATFLGLAQDALDMTFGLTDRPQLFQKFGLTKDTVVLFKKYDEGRADFPVDKELGLDQGDLSRFLLTHSMHLVTEYSSE
# TSSKIFEAKILNHLLLFINQTLDAHRELLAGFREAAPPFRGQVLFVVVDVGADNDHVLQYFGLKAQEAPTLRFINIETTKKYAPEHGAPVTAATITDF
# CRTVLGGGVKPYHLSQEVPPDWDQRPVKTLVGKNFEQVAFDETKNVFIKFYAPWCAHCKEMAPAWEELAEKYRDHEDVIIAELDATANELEAFPVHGF
# PTLKYFPAGPGRKVIDYKGARDLETFSKFLDSGGELPAEEPAEVPGAAFPEKPGNTTEPKDEKPGNTTEPRDEL]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/11
# CDS introns: 0/10
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 3
#     RM:   3 
# incompatible hint groups: 1
#     RM:   1 
# end gene g4
###
