# 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 'mm10' -----
#
#----- prediction on sequence range chr17:29450-119544 (90095bp) -----
#
# start gene g5
chr17	AUGUSTUS	gene	37746	90123	.	+	.	g5
chr17	AUGUSTUS	transcript	37746	90123	.	+	.	g5.t1
chr17	AUGUSTUS	start_codon	37746	37748	.	+	0	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	37746	38638	0.54	+	0	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	68702	68842	1	+	1	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	77552	77648	0.99	+	1	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	79239	79376	0.6	+	0	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	82766	83283	0.59	+	0	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	83636	83806	1	+	1	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	85048	85293	1	+	1	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	87578	87685	0.91	+	1	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	89001	89168	1	+	1	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	CDS	89997	90123	1	+	1	transcript_id "g5.t1"; gene_id "g5";
chr17	AUGUSTUS	stop_codon	90121	90123	.	+	0	transcript_id "g5.t1"; gene_id "g5";
# protein sequence = [MQSPKMNVQEQGFPLDLGASFTEDAPRPPVPGEEGELVSTDSRPVNHSFCSGKGTSIKSETSTATPRRSDLDLGYEPE
# GSASPTPPYLRWAESLHSLLDDQDGISLFRTFLKQEGCADLLDFWFACSGFRKLEPCDSNEEKRLKLARAIYRKYILDSNGIVSRQTKPATKSFIKDC
# VMKQQIDPAMFDQAQTEIQSTMEENTYPSFLKSDIYLEYTRTGSESPKVCSDQSSGSGTGKGMSGYLPTLNEDEEWKCDQDADEDDGRDPLPPSRLTQ
# KLLLETAAPRAPSSRRYNEGRELRYGSWREPVNPYYVNSGYALAPATSANDSEQQSLSSDADTLSLTDSSVDGIPPYRIRKQHRREMQESIQVNGRVP
# LPHIPRTYRMPKEIRVEPQKFAEELIHRLEAVQRTREAEEKLEERLKRVRMEEEGEDGEMPSGPMASHKLPSVPAWHHFPPRYVDMGCSGLRDAHEEN
# PESILDEHVQRVMRTPGCQSPGPGHRSPDSGHVAKTAVLGGTASGHGKHVPKLGLKLDTAGLHHHRHVHHHVHHNSARPKEQMEAEVARRVQSSFSWG
# PETHGHAKPRSYSENAGTTLSAGDLAFGGKTSAPSKRNTKKAESGKNANAEVPSTTEDAEKNQKIMQWIIEGEKEISRHRKAGHGSSGLRKQQAHESS
# RPLSIERPGAVHPWVSAQLRNSVQPSHLFIQDPTMPPNPAPNPLTQLEEARRRLEEEEKRANKLPSKQRYVQAVMQRGRTCVRPACAPVLSVVPAVSD
# LELSETETKSQRKAGGGSAPPCDSIVVAYYFCGEPIPYRTLVRGRAVTLGQFKELLTKKGSYRYYFKKVSDEFDCGVVFEEVREDEAVLPVFEEKIIG
# KVEKVD]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/10
# CDS introns: 0/9
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 134
#     RM: 134 
# incompatible hint groups: 0
# end gene g5
###
# start gene g4
chr17	AUGUSTUS	gene	91238	94095	.	-	.	g4
chr17	AUGUSTUS	transcript	91238	94095	.	-	.	g4.t1
chr17	AUGUSTUS	stop_codon	91238	91240	.	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	91238	91393	0.69	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	91482	91663	0.99	-	2	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	91744	91864	0.98	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	91954	92151	0.8	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	92224	92349	0.78	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	92468	92611	0.89	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	92679	92816	1	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	92894	93027	1	-	2	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	93116	93322	0.98	-	2	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	CDS	93888	94095	1	-	0	transcript_id "g4.t1"; gene_id "g4";
chr17	AUGUSTUS	start_codon	94093	94095	.	-	0	transcript_id "g4.t1"; gene_id "g4";
# protein sequence = [MDKQLLPVLLLLLGVSGSWGQGEEPGGPSEVLPEEPTGEEVPKEDGILVLNHRTLSLALQEHSALMVEFYAPWCGHCK
# ELAPEYSKAAALLAAESAVVTLAKVDGPAEPELTKEFEVVGYPTLKFFQNGNRTNPEEYAGPKTAEGIAEWLRRRVGPSATHLEDEEGVQALMAKWDM
# VVIGFFQDLQGKDMATFLALAKDALDMTFGFTDQPQLFEKFGLTKDTVVLFKKFDEGRADFPVDKETGLDLGDLSRFLVIHSMHLVTEFNSQASKGAG
# YSKTSPKIFAAKILNHLLLFVNQTLAQHRELLTDFREAAPPFRGQVLFVMVDVAADNSHVLNYFGLKAEEAPTLRLINVETTKKYAPTGVIAITAASV
# AAFCQAVLHGEIKHYLLSQEIPPDWDQGPVKTLVSKNFEQVAFDETKNVFVKFYAPWCSHCKEMAPAWEALAEKYKDREDIVIAELDATANELEAFSV
# LGYPTLKFFPAGPDRKVIDYKSTRDLETFSKFLDSGGHLPKEEPKEPAASAPVGTPFRTPAPEQVLS]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/10
# CDS introns: 0/9
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 0
# incompatible hint groups: 0
# end gene g4
###
# start gene g3
chr17	AUGUSTUS	gene	94392	96205	.	-	.	g3
chr17	AUGUSTUS	transcript	94392	96205	.	-	.	g3.t1
chr17	AUGUSTUS	stop_codon	94392	94394	.	-	0	transcript_id "g3.t1"; gene_id "g3";
chr17	AUGUSTUS	CDS	94392	94591	1	-	2	transcript_id "g3.t1"; gene_id "g3";
chr17	AUGUSTUS	CDS	94675	94738	1	-	0	transcript_id "g3.t1"; gene_id "g3";
chr17	AUGUSTUS	CDS	94814	94890	0.98	-	2	transcript_id "g3.t1"; gene_id "g3";
chr17	AUGUSTUS	CDS	95077	95160	1	-	2	transcript_id "g3.t1"; gene_id "g3";
chr17	AUGUSTUS	CDS	95253	95432	1	-	2	transcript_id "g3.t1"; gene_id "g3";
chr17	AUGUSTUS	CDS	96133	96205	1	-	0	transcript_id "g3.t1"; gene_id "g3";
chr17	AUGUSTUS	start_codon	96203	96205	.	-	0	transcript_id "g3.t1"; gene_id "g3";
# protein sequence = [MLGLDACELGEQLLELLRLALCARVLLADKDGESTPSDEVLDEIVPEYQAPGKKSMLAIWQLDPGDVSLVKYKQALLG
# PLPPIMDPSLPNVQVTRLTLLTEQAPGPIIMDLTGDLDALKNQVFVLKEGIEYKVKITFKVNKEIVSGLKCLHHTYRRGLRVDKAIFMVGSYGPRAQE
# YEFVTSVEEAPRGALARGLYVVRSLFTDDDRLNHLSWEWHLHVCQDWKD]
# 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: 0
# incompatible hint groups: 0
# end gene g3
###
# start gene g2
chr17	AUGUSTUS	gene	98358	105792	.	+	.	g2
chr17	AUGUSTUS	transcript	98358	105792	.	+	.	g2.t1
chr17	AUGUSTUS	start_codon	98358	98360	.	+	0	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	98358	98454	0.36	+	0	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	99549	99607	0.9	+	2	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	99913	99989	0.98	+	0	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	100170	100251	0.94	+	1	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	100769	100837	0.57	+	0	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	102458	102519	0.92	+	0	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	102608	102721	0.94	+	1	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	102821	102936	0.98	+	1	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	103054	103141	1	+	2	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	103226	103364	1	+	1	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	105519	105601	0.7	+	0	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	CDS	105681	105792	0.63	+	1	transcript_id "g2.t1"; gene_id "g2";
chr17	AUGUSTUS	stop_codon	105790	105792	.	+	0	transcript_id "g2.t1"; gene_id "g2";
# protein sequence = [MERVVVSMQDPDQGVKMRSQRLLITVIPHAVAAIYLAKKNIQKQGALVDYEKEHYALLHKKINHAWDLVLMQAREQLR
# AAKQRRKGDRMVISCQEQTYWLVNKPPPGAPNILEQGPERGSYNPSHMQMIECFRKALGRNRVKSSACLEAYLKFSSQHGPHDPIMSGCLPSNPWITD
# DVTYWAMNAPNVAAPTKLRVERWSFSFRELLDDPVGRAHFMDFLQKEFSAENLSFWEACEELRFGGQAQVPTLVDSVYQQFLAPGAARWINIDSRTME
# RTLEGLRQPHRYVLDAAQLHIYMLMKKDSYPRFLKSDIYKGLLEEAVIPLETKRWPFPFLRKPLHSSPSPALQSTPREPAATSSPEGADGE]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/12
# CDS introns: 0/11
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 11
#     RM:  11 
# incompatible hint groups: 0
# end gene g2
###
# start gene g1
chr17	AUGUSTUS	gene	108568	115607	.	-	.	g1
chr17	AUGUSTUS	transcript	108568	115607	.	-	.	g1.t1
chr17	AUGUSTUS	stop_codon	108568	108570	.	-	0	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	108568	108779	0.9	-	2	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	108866	108968	0.99	-	0	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	109714	109789	0.94	-	1	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	110247	110387	0.89	-	1	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	111251	111380	1	-	2	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	111621	111753	0.99	-	0	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	112356	112492	0.99	-	2	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	113186	113380	0.47	-	2	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	CDS	115343	115607	0.67	-	0	transcript_id "g1.t1"; gene_id "g1";
chr17	AUGUSTUS	start_codon	115605	115607	.	-	0	transcript_id "g1.t1"; gene_id "g1";
# protein sequence = [MDNKDLEAEIHPLKNEDKKSQENPGNLPRNEDNLKSKPVPSRLSRCRTVAFFLSLFTCLFVVFVLSFIIPCPDRPSSQ
# GTWKLDYNNAGFSTPCAFVVAVSGANGSVLWERPVAQDVALVKCAMPQTLDSDEVSSACIVVGRAGSFVAVSFFTGETLWSHPSSFSGNVSILSPLLQ
# VPDIDGDGDGTPDLLILAQEGQEVSGALYSGSTGYQIGHRGSLGVDGDGVALLHVTRTGAQYILLPCASALCGFSVKSLYERITGRDGHFKEDPYWEN
# MLNHSVHRRLLHRLGAVRYLMNIPGKAGQDLLLVTSEACVLLDGQDLEPRWTLGEVQVLRKPILGHYKPDTLAVVIENGTSIDRQDPPDVQHSLYMFH
# PTLPGILLELANVSANIVAFDAVLLEPSRHAAYVLLTGPASSDVPGLVSVTKHKVQDLVPGSRVIHLGEGSSDSDQAIRDRFSRLRYRSEM]
# Evidence for and against this transcript:
# % of transcript supported by hints (any source): 0
# CDS exons: 0/9
# CDS introns: 0/8
# 5'UTR exons and introns: 0/0
# 3'UTR exons and introns: 0/0
# hint groups fully obeyed: 9
#     RM:   9 
# incompatible hint groups: 0
# end gene g1
###
