##gff-version 3
# This output was generated with AUGUSTUS (version 2.5).
# AUGUSTUS is a gene prediction tool for eukaryotes written by Mario Stanke (mario.stanke@uni-greifswald.de)
# and Oliver Keller (keller@cs.uni-goettingen.de).
# 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
# No extrinsic information on sequences given.
# Initialising the parameters ...
# human version. Use default transition matrix.
# Looks like chr4.103M.fa is in fasta format.
# We have hints for 0 sequences and for 0 of the sequences in the input set.
#
# ----- prediction on sequence number 1 (length = 60001, name = chr4) -----
#
# Predicted genes for sequence number 1 on both strands
# start gene g1
chr4	AUGUSTUS	gene	1070000	1119477	1	-	.	ID=g1
chr4	AUGUSTUS	transcript	1070000	1119477	.	-	.	ID=g1.t1;Parent=g1
chr4	AUGUSTUS	CDS	1070276	1070566	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1072377	1072535	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1079458	1079616	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1079772	1080044	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1080168	1080482	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1081783	1081937	.	-	2	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1082244	1082409	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1082493	1082615	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1084295	1084414	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1095894	1096061	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1097118	1097206	.	-	2	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1098057	1098204	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1101469	1101627	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1102495	1102614	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1103920	1104049	.	-	1	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1104359	1104446	.	-	2	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1115761	1115842	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1116272	1116391	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1117078	1117196	.	-	2	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1117321	1117410	.	-	2	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1117917	1118008	.	-	1	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	CDS	1119422	1119477	.	-	0	ID=g1.t1.cds;Parent=g1.t1
chr4	AUGUSTUS	start_codon	1119475	1119477	.	-	0	Parent=g1.t1
# protein sequence = [MAEEGAVAVCVRVRPLNSREESLGETAQVYWKTDNNVIYQVDGSKSFNFDRVFHGNETTKNVYEEIAAPIIDSAIQGY
# NGTIFAYGQTASGKTYTMMGSEDHLGVIPRAIHDIFQKIKKFPDREFLLRVSYMEIYNETITDLLCGTQKMKPLIIREDVNRNVYVADLTEEVVYTSE
# MALKWITKGESVRLKEGCNINRSLFILGQVIKKLSDGQVGGFINYRDSKLTRILQNSLGGNAKTRIICTITPVSFDETLTALQFASTAKYMKNTPYVN
# EVSTDEALLKRYRKEIMDLKKQLEEVSLETRAQAMEKDQLAQLLEEKDLLQKVQNEKIENLTRMLVTSSSLTLQQELKAKRKRRVTWCLGKINKMKNS
# NYADQFNIPTNITTKTHKLSINLLREIDESVCSESDVFSNTLDTLSEIEWNPATKLLNQENIESELNSLRADYDNLVLDYEQLRTEKEEMELKLKEKN
# DLDEFEALERKTKKDQENELSSKVELLREKEDQIKKLQEYIDSQKLENIKMDLSYSLESIEDPKQMKQTLFDAETVALDAKRESAFLRSENLELKEKM
# KELATTYKQMENDIQLYQSQLEAKKKMQVDLEKELQSAFNEITKLTSLIDGKVPKDLLCNLELEGKITDLQKELNKEVEENEALREEVILLSELKSLP
# SEVERLRKEIQDKSEELHIITSEKDKLFSEVVHKESRVQGLLEEIGKTKDDLATTQSNYKSTDQEFQNFKTLHMDFEQKYKMVLEENERMNQEIVNLS
# KEAQKFDSSLGALKTELSYKTQELQEKTREVQERLNEMEQLKEQLENRDSTLQTVEREKTLITEKLQQTLEEVKTLTQEKDDLKQLQESLQIERDQLK
# SDIHDTVNMNIDTQEQLRNALESLKQHQETINTLKSKISEEVSRNLHMEENTGETKDEFQQKTIENQEELRLLGDELKKQQEIVAQEKNHAIKKEGEL
# SRTCDRLAEVEEKLKEKSQQLQEKQQQLLNVQEEMSEMQKKINEIENLKNELKNKELTLEHMETERLELAQKLNENYEEVKSITKERKVLKELQKSFE
# TERDHLRGYIREIEAT]
# end gene g1
###
# command line:
# augustus --optCfgFile=ppx.cfg --predictionStart=1070000 --predictionEnd=1130000 chr4.103M.fa
