##gff-version 3 # This output was generated with AUGUSTUS (version 2.3). # AUGUSTUS is a gene prediction tool for eukaryotes written by Mario Stanke (mstanke@gwdg.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 # reading in the file /tmp/bac-submission-temp-C10HBa0248A13-s8ivJ/AUGUSTUS_tom_cdna/hints.gff ... # Setting 1group1gene for E. # Sources of extrinsic information: M E # Have extrinsic information about 1 sequences (in the specified range). # Initialising the parameters ... # tomato version. Use default transition matrix. # Looks like /tmp/bac-submission-temp-C10HBa0248A13-s8ivJ/AUGUSTUS_tom_cdna/seq_with_defline_removed is in fasta format. # We have hints for 1 sequence and for 1 of the sequences in the input set. # # ----- prediction on sequence number 1 (length = 134730, name = C10HBa0248A13.2) ----- # # Delete group HintGroup SGN-E201231, 5291-29160, mult= 1, priority= 4 7 features # Delete group HintGroup SGN-E269295, 89756-91104, mult= 1, priority= 4 6 features # Forced unstranded hint group to the only possible strand for 36 groups. # Deleted 2 groups because some hint was not satisfiable. # Predicted genes for sequence number 1 on both strands # start gene g1 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 216 7365 0.56 - . ID=g1 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 216 7365 0.56 - . ID=g1.t1;Parent=g1 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 216 218 . - 0 Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 280 4484 0.56 - . Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 4561 5224 1 - . Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 5299 5525 1 - . Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 5573 7201 1 - . Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 7286 7356 1 - . Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 216 279 1 - 1 ID=g1.t1.cds;Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 4485 4560 0.58 - 2 ID=g1.t1.cds;Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 5225 5298 1 - 1 ID=g1.t1.cds;Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 5526 5572 1 - 0 ID=g1.t1.cds;Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 7202 7285 1 - 0 ID=g1.t1.cds;Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 7357 7365 1 - 0 ID=g1.t1.cds;Parent=g1.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 7363 7365 . - 0 Parent=g1.t1 # protein sequence = [MSDDLSFVDFSYACLKTVFFSRANLQCAKFRDVDAEASIFHNATLRECEFTGANLRGAVLAGANLQSANLQDACLIGC # SFCGADLRSAHLQVKLLKLFAPSRLAPSRLALVRSAVWE] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 72.7 # CDS exons: 5/6 # E: 5 # CDS introns: 3/5 # E: 3 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 3 # E: 3 # incompatible hint groups: 6 # E: 6 (SGN-E687991,SGN-E284931,SGN-E539551,SGN-E344644,SGN-E328816,SGN-E359048) # end gene g1 ### # start gene g2 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 7411 66925 0.01 + . ID=g2 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 7411 66925 0.01 + . ID=g2.t1;Parent=g2 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 7411 7413 . + 0 Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 7418 8339 0.53 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 8469 8681 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 9609 9704 0.9 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 9770 23966 0.55 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 24078 27391 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 27527 29014 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 29171 30271 0.99 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 30520 30590 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 30919 31218 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 31371 35769 0.98 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 35883 37201 0.5 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 37240 37322 0.51 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 37417 38412 0.36 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 39096 39751 0.45 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 39830 39915 0.64 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 40027 40261 0.81 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 40338 40701 0.51 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 40948 41607 0.91 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 41999 42093 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 42316 46188 0.55 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 46274 47260 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 47323 47872 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 47961 48063 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 48126 48218 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 48316 48456 0.86 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 48868 49660 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 50510 50658 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 50785 50860 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 50975 51080 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 51168 51742 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 51879 51956 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 52000 54194 0.96 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 54212 55749 0.41 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 55798 55881 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 55895 56180 0.73 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 58477 60469 1 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 61145 66607 0.12 + . Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 7411 7417 0.53 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 8340 8468 1 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 8682 9608 1 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 9705 9769 0.55 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 23967 24077 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 27392 27526 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 29015 29170 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 30272 30519 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 30591 30918 1 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 31219 31370 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 35770 35882 0.51 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 37202 37239 0.53 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 37323 37416 0.37 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 38413 39095 0.35 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 39752 39829 0.69 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 39916 40026 0.87 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 40262 40337 0.55 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 40702 40947 0.66 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 41608 41998 0.97 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 42094 42315 1 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 46189 46273 0.55 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 47261 47322 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 47873 47960 1 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 48064 48125 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 48219 48315 1 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 48457 48867 0.86 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 49661 50509 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 50659 50784 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 50861 50974 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 51081 51167 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 51743 51878 1 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 51957 51999 1 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 54195 54211 0.41 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 55750 55797 0.62 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 55882 55894 0.99 + 2 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 56181 58476 0.92 + 1 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 60470 61144 0.19 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 66608 66925 0.19 + 0 ID=g2.t1.cds;Parent=g2.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 66923 66925 . + 0 Parent=g2.t1 # protein sequence = [MGAEWWKSDTEAVINQAIKSGLAPNVSDAHTINGHPGAISNCPSQGGYTLSVDPGKSYMLRVINAALNEELFFKIAGH # KMTVVEVDATYVKPFKTDTIIIAPGQTTNVIVTADKGSGKYMVAASPFMDAPIAVDNVTATATLHYSGTLASSITTLTKTPPKNATTVANNFIDSLRS # LNSKKYPAKVPKKVDHSLFFTVGLGVNPCSSCKQGNGSRVVASINNVTFVMPTVAILQAHFFGIKGVYTTDFPQNPPFKFNYTGTPPTNLATMSGTKV # YRLPYNATVQLVLQDTGIISPENHPIHLHGFNFFAVGKGIGNFNPKKDPNNFNLIDPVERNTIGVPSGGWVAIRFRADNPGVWFMHCHLEIHTTWGLK # MAFLEEGSFALHWIPLTQREPDSMLAAMFSGRHTICQESEKGHIFVDRDGKHFHHILNWLRDGVIPPLKDSEYAQLLREAEYYQLLGLVDGIKSALSK # RKEDEELGTELTRIDIIKCIQSERVRFRGINLSGLDLSKLVINHGMEDSFLDKVREISKKFFALPTEEKLKYARTVNQIEGYGNDKVLTDKQRLDWSD # RLCLNVFPEDIRELRFWPQKPECFREVFEEYMKNMKLLSESLLKAMAASLNVEENCFLDQCGERGMTTARFNFYPPCPRPDVVLGVKQHADASAITIL # LQDKEVEGLQVLKDDQWFRVPVVPYGLLINVGDQVEVMSNGIFKSPVHRVVTNAERERNSLAVFIMPDVHVGIGPVEKLINEERPRGAVAAGGWLLLF # AAGGRRLVAAVLLAAAGCCFPCCAAGAFVECRIRRYNFNVMMKTTTRLCSSKPIATVNGKFPGPTIYAREVNSNETCHVQAQLFRCIMLRELEGSSVN # AILFYINGTTLRFTIRKFAIISGLNCSDNGVDFYFDTDQPNRIIDEYFPGNSPVTKARLSKAFKAKVWGDNQEYAYKFGILYYIHKFIMSAEPTTTTI # DRLDFDLVETGRFMDYPWGRKNFNELAKSINNKLKPCGQYYRIQGFPLPMQVWFYECCSYVDDKIAVKVSSHIPRIINWVTKNDHPRFDYFMKTIFND # VDNPVKDEFADLRKMLEDKFKTVLEAMNSKVNVVDDDQESPIGDVHHQPTYTPHEPQSQSANLTEQEATFEDVMQETHITRVHQSNTKSSQLEAEESI # IVAAPIQMVYMPDSNQETVVTESQDELPDHLLPSVKTLQNIALQKQVEVTPMSAVRHRCPGPFNISPYMTSFGSDAGDLSKEVLDEMIIDYINGYKML # AYAPWHTVDDVFIPVHLECRLHWILIVISFNDRCIKVYDSINNSLHHSFVVNHIKKYAQLIPMYLVKSDFYLKKGLDIASHHRYQGHTVYDSFEIVYV # EDLPQQPAASLDCGVYVASYAEFLSERKDIPADLDPEEIRLRYGALLWNYGNQKIQAGAVSDSEAPLKPVRNRTKNNSSERITIQREEERNEKIIRGL # LKLPPNRKCINCNSLGPQYVCTNFWTFVCMTCSGIHREFTHRVKSVSMSKFTSQEVEALQQGGNQRAREIYLKSWDPQSQWLPNNSNVDKVREFIKTV # YVDKKYAGAQSSDRPPRDIQNLRNHDDDMRRASSYHSYSQSPPYDFQYEERRYGKNAPALTRKPGSDRGLYEGKVSSFLSPSRLSDNMYDDRFGNEGS # NPRASDYSVSSGGDPFRSVAQSPNFQRGIGSPLCDTSRDISYEDVRHVKKDAGRILRAQRTASSGSFESFDSNSLSFKSVNSVCLADAVSESNQTIET # HSSKLSTFPSLQRSSGPGNPDGPDLFNAPSVPQNAPPSVSTKSRLPVSSFQPSISAGPIGNSHQPSLTLPPSSLDFFSEVPNLPSAVSADEKPSCEVT # SKNEGWATFDMQRHAATTGIEQFTLAPTPAYGHNSFDILPEKTQQQLVTEKSLDVDDGWATFDVPQHVTLTGSNNFTSNTIQLKGDAQSNSDPTFSVM # QWPSPMESAPHGPAVRDSTACALDLSMPAPFHGGVLNVEVTPSARSTDLWSAFDVSNDHLALKSLPNSKEQVVMNHDLVDDQYMGLRGVENAVTGQSQ # RAVLDSGYPITSFPSYVSASSSGLSTLPVATGVHSHANEQKSNNPFDLPYDADMECSNMPQYWDMSSLQAALPSDGMSSSFVGGVTESWFPQNPATAY # GPAGQHGTLFVSSQPAGNQISNVPTHVDGFLWTIQIDLYFNPGILQLSFPFVFSILVSVSPILVCTAALLGTLLSYGQPNIPVFEWEENTTDHIVPLE # TRDAILVESDNSYFTERYSDQERDKVDQSTRSEVHRGKRFGDHSALIGGVLVGGVTGQVAREFYEHKNEDKFSDAELTEDQYSPTSKGNEESVEFDND # KSVDSFDSRRANFDSPPGSPWKRREEALYSGSDGAESSSPDASVADIMPMLDELHPLLEEDNPQPVGLSRDVSHAPSESSTKSPESDDESDDDVSEDQ # EEVEVADDENEDEEEEETRDTEGPKSAITWTEEDQRNLMDLGTSELERNQRLESLIARRRSRKNMSFTDEKSLIDLVSVDFMPPISTARQNPFDLPND # NYGPGLPPIPGSAPSILLPRCKRNPFDLPYDPSEEKPDLTGDTFDQEIITSQPKETFFRRHESFNVGPSIFGLNKKDTRFRPYFVPDVMAAEGTSYSP # LQRHPSDLSDSKVSSVLETESQGSIEDLEYKNLNEEDVEDKNLNEELEGKDLTDEHIFKEPKLISKIEHATEDIGHGSQSSEEVECLVLGASDKRDIE # LDDTDVTLPNVENHHDLVPNVFHEETAASSMVLDPSKICSKSATSEQKCSSQSSSSSSSEVGEKIFADKVVVRSSSEESTCHVETISEHPSPNVSDLN # ITSSSVEESSHLEPIYDASPPSIKKNTSSSSIASDLLLESETGHASEREPVANNRDIEKSIPTKEQIFSSADSKELRLREAITDKHELDVAKLEISNN # DEVFGSASALPVPVADSQTSIDSKSSTKEAPVSTEKARTTESLNVSKVQEVPPSITSPRSPESVKTSNAKVATEESESSKNGPVHKVSSLKDHEMGLP # TLEPRPTGDIDLINKQTLEENADRRVLHDSIDDVHVRESKGKGVSLHSQDVGADLAVKQVMKNDIDKPNTSLQQALKTESREASSSKNSESSLKKIVV # SGRSEADAGKIDQEVVKQEDKVTTTEKPNLAVELPQETGVVTGDVIVKKENHTSQAQGAKLTNANLKGANLQRAYLRHVNLRDTVSHITTANQLGFVI # AYLSILNYVDSVKHMWKFLGKKKQLLEIKPDFHSLTRINLFPGLLLDLLVIQFTDEFPSGRKKS] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 49.3 # CDS exons: 20/38 # E: 20 # CDS introns: 17/37 # E: 17 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 22 # E: 22 (SGN-E247286,SGN-E363664,SGN-E250363,SGN-E360391,SGN-E731496,SGN-E369771,SGN-E247375,...) # incompatible hint groups: 29 # E: 29 (SGN-E687991,SGN-E284931,SGN-E539551,SGN-E344644,SGN-E328816,SGN-E359048,SGN-E204142,...) # end gene g2 ### # start gene g3 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 75323 84699 0.77 - . ID=g3 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 75323 84699 0.77 - . ID=g3.t1;Parent=g3 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 75323 75325 . - 0 Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 75424 75820 0.93 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 75870 76844 0.99 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 76886 76997 0.88 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 77078 77193 0.93 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 77274 77383 1 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 77437 78730 1 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 78890 81019 1 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 81132 81217 1 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 81440 81691 1 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 81929 82004 1 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 82095 82704 1 - . Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 75323 75423 0.92 - 2 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 75821 75869 0.97 - 0 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 76845 76885 0.97 - 2 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 76998 77077 0.85 - 1 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 77194 77273 1 - 0 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 77384 77436 1 - 2 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 78731 78889 1 - 2 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 81020 81131 1 - 0 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 81218 81439 1 - 0 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 81692 81928 1 - 0 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 82005 82094 1 - 0 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 82705 84699 1 - 0 ID=g3.t1.cds;Parent=g3.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 84697 84699 . - 0 Parent=g3.t1 # protein sequence = [MPPKASSASRWGRTRSSARKSAPESAGQKPSPPPSTSTAVTDSPSPQKDNQSSPLMTYSTNSKISEHPEQSLSIQVPE # TNTGETGVELNEADQGTPPKTVEIKAVGEQKVGQSGKKKVVKKTVKIVKKIIKRKVPKSVAKNSKMTDESEEGHAETVLDSLDVEKASSRGTIEPETV # CLEVSSAATVGEGGNSEKDNFQPKEVEEGIIAVEVMLGKDGMKDCEVTVAKDKLELPILGCNDAKDNLGSPETGNVVVDSEKGNLRSVKIVKKIVKKK # VPKSVAKNSRKTEESEKGREIADAETVLDSLDVKKANSRGTIELETVYVEPCNAAAVSEGGDFEKGTFHPVEVGKGTIAAEGILGKDRMMDSEVSVNE # GKLQLPISENKGAKDNIGSLQTGNTVLDSEKGNLRPVKIVKKIVKKKVPKLVARKREKKEELVKGSNNGDAETIMDSAGVEKSKPSPPETENLESCKD # VSAENEESKKHSLHPMEVEKAECVSEFGATENTLEACMLECKDSVVENDNMDSLETQIVVLDSEKNSLNVSTSDNVDSSKDQNLVQLGEEGYSQGREE # TKEAVDTSLRLNEGILLSGEMEALERKKRRRTEIFIGGLGKESKEEDIRSIFGEVGEVVDVRLLINHETGKNKGFAFLRYASAADAKKAVERYSKVEI # SGKQCRVSLAEGNDTIYLGNIDKKWKTEDVIDLLKKAGIENIDKVTVMANPNNIEQNRGFAFVELETSKEAQIAFSKLQKKDAFGKHMNVKVAWAQPL # IEPNEEELLKVKSVYAEYLPSSWIEEKVRDYFGKFGEIESVVLAKDLPSSRRKDFAFVNYISRESALACIEGFSHEPANESGSKVSIKVSLAKPMPKS # KQTKRVTLPTRREPPEKKKIQDHSILKRHEPSRKVNYMRRYDEDHRVEGSSSTTNELLHLLRQQGPVRQLHSGLNMGINHQYSLSGSKRPFSAVVHNP # HRMDSSGVSRVHLESSFPTANRSMLPHSRGPLGTPSFAYYGQLGSDHSPGSVYGVQSFPNSFQSHDHDPYGGNRSIYRRLFSLKLGEHHSNVVCQQFI # ADEGSNCYGDLGFA] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 60.9 # CDS exons: 8/12 # E: 8 # CDS introns: 6/11 # E: 6 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 2 # E: 2 (SGN-E243123,SGN-E332552) # incompatible hint groups: 0 # end gene g3 ### # start gene g4 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 89641 94216 1 + . ID=g4 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 89641 94216 1 + . ID=g4.t1;Parent=g4 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 89641 89643 . + 0 Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 89647 89721 1 + . Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 89829 89911 1 + . Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 89988 90871 1 + . Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 90944 91067 1 + . Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 91131 91897 1 + . Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 92251 93493 1 + . Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 93618 94195 1 + . Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 89641 89646 1 + 0 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 89722 89828 1 + 0 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 89912 89987 1 + 1 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 90872 90943 1 + 0 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 91068 91130 1 + 0 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 91898 92250 1 + 0 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 93494 93617 1 + 1 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 94196 94216 1 + 0 ID=g4.t1.cds;Parent=g4.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 94214 94216 . + 0 Parent=g4.t1 # protein sequence = [MQEVRTVRVGNVSDLAAEREVREFFSFSGEIDHIEIRREQGQSKTAFVTFKDPKALEIALLLSGATIVDQIVSIKQAE # DYVPSSETREVRIVDNAVNVAGESSSPLAEAKPTSPSNGRVNGKVYISKAQDVVSNVLAKGSAIRQDAMNKAKAFDEKHQLRATASARVISFDRRVGL # TEKLTVGISVVNEKVKSVDQRLQVSDKTMAAVMAAERKLNDTGSAVKSSRYVNAGAAWLNGAFSKVAKAGQVAGTKTREKWNFALSNLTAKDPSIVA] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 100 # CDS exons: 8/8 # E: 8 # CDS introns: 7/7 # E: 7 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 9 # E: 9 (SGN-E339802,SGN-E718628) # incompatible hint groups: 15 # E: 15 (SGN-E326352,SGN-E334658,SGN-E276159,SGN-E281348,SGN-E202939,SGN-E697895,SGN-E281521,...) # end gene g4 ### # start gene g5 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 94412 99280 0.09 + . ID=g5 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 94412 99280 0.09 + . ID=g5.t1;Parent=g5 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 94412 94414 . + 0 Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 94476 95235 0.35 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 95947 96018 0.9 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 96142 96241 0.63 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 96395 97276 0.96 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 97393 97776 0.62 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 97945 98545 0.8 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 98771 98935 0.78 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 99013 99216 0.86 + . Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 94412 94475 0.37 + 0 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 95236 95946 0.62 + 2 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 96019 96141 0.58 + 2 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 96242 96394 0.97 + 2 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 97277 97392 0.99 + 2 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 97777 97944 0.64 + 0 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 98546 98770 0.76 + 0 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 98936 99012 0.85 + 0 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 99217 99280 0.93 + 1 ID=g5.t1.cds;Parent=g5.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 99278 99280 . + 0 Parent=g5.t1 # protein sequence = [MWSGVVWCGEYNYTRLCNSFVYSADSSKTDGKGSDSNNVQNTPPPHLQIPGDQDEKSKNSQNGDDIVVEDVKRNKSSN # LKRVMSAGLQVDTVLGRKTGNLKDIYTLGRKLGQGQFGTTFLCVDKAQPKEFACKSIAKRKLTTEEDVEDVRREIQIMHHLAGHPSVVQIVGAYEDAV # AVHVVMELCAGGELFDRIIKRGHYSEKKAAELARVIVGVVEACHSLGVMHRDLKPENFLFVNEKEESSLKTIDFGLSVFFRPGETFTDVVGSPYYVAP # EVLRKRYGPECDIWSAGVIIYILLSETEQGIFEQIVKGELDLVSEPWPAISESAKDLVRKMLVREPKKRLTAHEVLCHPWVRVGGVAPDKPLDSAVLS # RLNQFSAMNKLKKIAIRVIAENLSGEEIAGLKQMFKMIDADNSGHITLEELKKGLEKVGSKLKDSEINSLMQAADMDNSGTIDYGEFIAAMLHLNKVQ # KEDHMYAAFSYFDQDGSGYITQEELQKACEKFGLSNIPMEELMREVDQDNDGRIDYNEFVAMMQDTGFGKNGNKRVYHGSRLEPVFLSIFSAYCFA] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 11.8 # CDS exons: 2/9 # E: 2 # CDS introns: 0/8 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 0 # incompatible hint groups: 9 # E: 9 (SGN-E252166,SGN-E242558,SGN-E369391,SGN-E378521,SGN-E224699,SGN-E224623,SGN-E252304,...) # end gene g5 ### # start gene g6 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 100317 111218 0.84 - . ID=g6 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 100317 111218 0.84 - . ID=g6.t1;Parent=g6 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 100317 100319 . - 0 Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 101917 102012 0.98 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 102196 102277 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 102340 102414 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 102592 102708 0.99 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 102781 103995 0.98 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 104173 104269 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 104500 104599 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 104778 105979 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 106089 106242 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 106341 106454 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 106595 106680 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 106858 107256 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 107504 108531 0.94 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 108603 109557 1 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 109783 110982 0.99 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 111119 111212 0.97 - . Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 100317 101916 0.99 - 1 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 102013 102195 0.99 - 1 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 102278 102339 1 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 102415 102591 1 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 102709 102780 0.99 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 103996 104172 0.98 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 104270 104499 1 - 2 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 104600 104777 1 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 105980 106088 1 - 1 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 106243 106340 1 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 106455 106594 1 - 2 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 106681 106857 1 - 2 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 107257 107503 1 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 108532 108602 0.99 - 2 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 109558 109782 1 - 2 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 110983 111118 0.98 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 111213 111218 0.92 - 0 ID=g6.t1.cds;Parent=g6.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 111216 111218 . - 0 Parent=g6.t1 # protein sequence = [MQKGDAGPIDLDKTTTTLEPDKTSSGGLFVPGKERVVFKPSERKSLLGLDALAIAKRGGATVESEFKVPRERLASIAS # SLDEDEESSAVSGIDELGHTASNVSRNNVRRRYRESYASETSASGSAVTDERGDAETVVRSHLNENTEVPPVSSGSLRSTISRGESVDRERDGSEYRD # NYRSESREGRRRDRRTSREERHHRDSSRGYEREYDGDDGRKRSRYDGFRRTPGRSEWDDGRWEWQDTPRRDSRSSSSSRRYEPSPSPKFLGASPDSRL # VSPWLGDHTPQSAGAASPWDSVAPSPTPIRASGSSVRSSSSRYGAKSSLIMSSTGGALSEDGGDDTNGASEDQNEEITESMRLEMEYNSDRAWYDREE # GSTVFEGDGSSAFLGDEASFQKKEVELAKKLVRRDGSKMSLAQSKRLSQLTADNAQWEDRQLLRSGAVRGTEVQTEFDDEDERKVILLVHDTKPPFLD # GRIVFTKQAEPIMPIKDPTSDMAIISRKGSALVREIREKQNMHKSRQRFWELAGSKLGDILGVEKSAEQVDADTATVGEDGEVDFKGEARFSQHLKKG # EAVSDFALSKTLSQQRQYLPIFSVRDDLLQVVRENQVVVVVGETGSGKTTQLTQYLHEDGYTSNGIVGCTQPRRVAAMSVAKRVSEEMETELGDKVGY # AIRFEDVTGPTTVIKYMTDGVLLRETLKDPDLEKYRAVTQISLFRSVIVMDEAHERSLNTDVLFGILKKVVARRRDFKLIVTSATLNAQKFSNFFGSV # PIFHIPGRTFPVNKLYSKTPCEDYVEAAVKQAMTIHITSAPGDILIFMTGQDEIEATCYALSERMEQLTSSTKQAVPNLLILPIYSQLPADLQAKIFQ # KAEDGARKCIVATNIAETSLTVDGIYYVIDTGYGKMKVYNPRMGMDALQVFPISRAAADQRAGRAGRTGPGTCYRLYTENAYENEMLQSPVPEIQRTN # LGNVVLLLKSLKIQNLLDFDFMDPPPQDNILNSMYQLWVLGALNNVGDLTSLGWKMVEFPLDPPLAKMLLMGEQLECLNEVLTIVSMLSVPSVFFRPK # DRAEESDAAREKFFVPESDHLTLLNVYQQWKANQYRGDWCNDHYLQVKGLRKAREVRSQLLDILKTLKIPLTSCGPDWDVVRKAICSAYFHNAARLKG # VGEYVNCRNGMPCHLHPTSALYGLGYTPDNVVYHELILTSKEYMQCVTAVEPHWLAELGPMFFSVKDSDTSMLEHKKKQKEEKTAMEEEMEKLRKVQA # EADRRNKEKEKEKRAKELQQVSMPGLKKGSTTYLRPKRLGL] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 30.3 # CDS exons: 6/17 # E: 6 # CDS introns: 4/16 # E: 4 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 5 # E: 5 (SGN-E230938,SGN-E240704,SGN-E231698,SGN-E739475,SGN-E330771) # incompatible hint groups: 4 # E: 4 (SGN-E375001,SGN-E376803,SGN-E375002,SGN-E711462) # end gene g6 ### # start gene g7 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 113517 115972 0.6 + . ID=g7 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 113517 115972 0.6 + . ID=g7.t1;Parent=g7 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 113517 113519 . + 0 Parent=g7.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 114339 114418 0.99 + . Parent=g7.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 114491 115891 0.97 + . Parent=g7.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 113517 114338 0.62 + 0 ID=g7.t1.cds;Parent=g7.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 114419 114490 0.98 + 0 ID=g7.t1.cds;Parent=g7.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 115892 115972 0.96 + 0 ID=g7.t1.cds;Parent=g7.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 115970 115972 . + 0 Parent=g7.t1 # protein sequence = [MVIQEMGSRGGGEAKANALATQGSLYSLTLDEVRNQLGNCGKPLNSMNLDEFVKTVWTIESNQEVVGGNDYGPVQQGA # SQHHPSSITMSRDLSKKTVDEVWQDIQQGVKIDNVDKRSQERQLTLGEITLEDFLVKAGVIAESTQGKRISGLVFGVDSMSLTQQAQWTHYQIPAMQQ # VPEQQHQQQQQNIPPVFMPGHPIQQPLPVVANPIMDATYPETQVTMSPAHIIGTLSDTQTSGRKRVAPRDVAENSIERRQKRMIKNRESAARSRARKQ # AYTHELENKVSFLEEENERLKRQKEIEDILPSVPPPEPKYQLRRTSSGPI] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 20 # CDS exons: 1/3 # E: 1 # CDS introns: 0/2 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 1 # E: 1 (SGN-E299937) # incompatible hint groups: 1 # E: 1 (SGN-E247138) # end gene g7 ### # start gene g8 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 116731 118764 0.49 - . ID=g8 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 116731 118764 0.49 - . ID=g8.t1;Parent=g8 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 116731 116733 . - 0 Parent=g8.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 116935 117649 1 - . Parent=g8.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 117775 118385 1 - . Parent=g8.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 116731 116934 1 - 0 ID=g8.t1.cds;Parent=g8.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 117650 117774 1 - 2 ID=g8.t1.cds;Parent=g8.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 118386 118764 0.49 - 0 ID=g8.t1.cds;Parent=g8.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 118762 118764 . - 0 Parent=g8.t1 # protein sequence = [MANPRRTTFSSSGNQNHHQLPISTAPFQNQGTQISSLMNSLKSFLKKPHAFPFLLSLFLFLTWVSLRFQHPSTSNPQR # EEWHAKVQSGSDQNANLVRFSASSSSIAKDKRGWLINPISLALDSAISGGAAVCASVHLGEIRSGGLRGNHRHHTCNETFVIWGAKTVFRVENDAVEK # GYAEVIIGADEVAVAVSPLGTAHALVNVDPGRSTYFMGCQDSVINYNGSTTDFNVWKDL] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 100 # CDS exons: 3/3 # E: 3 # CDS introns: 2/2 # E: 2 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 4 # E: 4 (SGN-E269584,SGN-E300294) # incompatible hint groups: 2 # E: 2 (SGN-E542259,SGN-E542262) # end gene g8 ### # start gene g9 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 119749 125702 0.17 - . ID=g9 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 119749 125702 0.17 - . ID=g9.t1;Parent=g9 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 119749 119751 . - 0 Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 119925 120028 1 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 120073 120699 1 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 120789 120882 1 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 120928 121416 1 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 121525 121624 1 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 121711 121840 1 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 121929 122053 1 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 122279 123411 0.95 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 123475 123583 0.6 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 123638 123848 0.5 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 123952 124084 0.84 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 124188 124265 0.54 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 124327 125648 0.73 - . Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 119749 119924 1 - 2 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 120029 120072 1 - 1 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 120700 120788 1 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 120883 120927 1 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 121417 121524 1 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 121625 121710 1 - 2 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 121841 121928 1 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 122054 122278 0.95 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 123412 123474 0.97 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 123584 123637 0.53 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 123849 123951 0.83 - 1 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 124085 124187 0.5 - 2 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 124266 124326 0.54 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 125649 125702 0.73 - 0 ID=g9.t1.cds;Parent=g9.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 125700 125702 . - 0 Parent=g9.t1 # protein sequence = [MASLLNLSSSSPLLRYVHVRDFHIAEREEDISYYAGYLGSSFMLGRALTSILWGIIADRYGRKPVVVIGTITVLIFNA # LFGLSTNYWMAIVTRFLIGSLCGIIGTMRAYASEICRKEYHALGISAVSTSWGIGLVIGPAIGGYLAQETLHKHNKIKQDKNNFQEAVEGSPDESNGL # NVSQNINPSERRAPSSQKSLLMNWPLMSSIIVYCVFQLHDIAYLEIFSLWAVSPRTLGGLSFTTSDVGQVLAITGIGLLLFQLLVYPLVERITGPVMI # SRIGAVLSIPLLASYPYIALLTGFGLSIALNCASMLKNILSVSITTGLLIMQNRAVSQEQRGAANGISMSSMSLFKTIGPAAGGSLLSWSQRRLDADI # LPGDQLVFFVLNAIELLGLLLTLRPFLQEPEDSDNVPKSKHDSLDQENGMQERLVLTELP] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 51.9 # CDS exons: 7/14 # E: 7 # CDS introns: 7/13 # E: 7 # 5'UTR exons and introns: 0/0 # 3'UTR exons and introns: 0/0 # hint groups fully obeyed: 0 # incompatible hint groups: 1 # E: 1 (SGN-E699478) # end gene g9 ### # start gene g10 C10HBa0248A13.2 AUGUSTUS_tom_cdna gene 128630 128936 0.7 - . ID=g10 C10HBa0248A13.2 AUGUSTUS_tom_cdna transcript 128630 128936 0.7 - . ID=g10.t1;Parent=g10 C10HBa0248A13.2 AUGUSTUS_tom_cdna stop_codon 128630 128632 . - 0 Parent=g10.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna intron 128725 128809 0.7 - . Parent=g10.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 128630 128724 0.7 - 2 ID=g10.t1.cds;Parent=g10.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna CDS 128810 128936 0.71 - 0 ID=g10.t1.cds;Parent=g10.t1 C10HBa0248A13.2 AUGUSTUS_tom_cdna start_codon 128934 128936 . - 0 Parent=g10.t1 # protein sequence = [MPQRNHENEGSNGGQSSRPFKRPMMIGFGVLVGEDGFTTANLGSRVVDIGTKASTRSDELTGDIGYQPRFGVK] # Evidence for and against this transcript: # % of transcript supported by hints (any source): 0 # CDS exons: 0/2 # CDS introns: 0/1 # 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 g10 ### # command line: # /usr/bin/augustus.real --species=tomato --hintsfile=/tmp/bac-submission-temp-C10HBa0248A13-s8ivJ/AUGUSTUS_tom_cdna/hints.gff --extrinsicCfgFile=extrinsic.ME.cfg --gff3=on /tmp/bac-submission-temp-C10HBa0248A13-s8ivJ/AUGUSTUS_tom_cdna/seq_with_defline_removed