FGenes output

Pattern based Human Gene structure prediction

Name: Seq_name:all
First three lines of sequence:
TTANGATTCGTTTCCATGGAGCTGCCCATGACCATTTACACCATATACATACTGTCTCTGAGCAGAGATACGACA
CTCAGGCTGGTGATAAGGGAACACAGCTGTCAGGGGGCCAGAAGCAGCGTGTCGCCATAGCCCGAGCCATCATCC
GCAACCCCAAACTGTTGCTCCTGGACGAGGCCACGTCTGCGCTCGACACTGAGAGTGAGAAGGTGAGACTTTATT


fgenes  Thu Jun  3 19:17:31 CDT 1999
 FGENES 1.6 Prediction of multiple genes in genomic DNA
 Time: 19:16:25 Date: Thu Jun  3 1999
 Seq name: >Seq_name:all                                               
 Length of sequence:   39951 GC content: 0.46 Zone: 2
 Number of predicted genes:   3 In +chain:   1 In -chain:   2
 Number of predicted exons:  57 In +chain:  38 In -chain:  19
 Positions of predicted genes and exons:
  G Str Feature  Start       End   Weight  ORF-start ORF-end
     
  1 +   1 CDSf    2112 -    2152    4.87    2112 -    2150
  1 +   2 CDSi    2629 -    2715    1.27    2630 -    2713
  1 +   3 CDSi    2858 -    2891    1.46    2859 -    2891
  1 +   4 CDSi    3474 -    3620    1.91    3474 -    3620
  1 +   5 CDSi    4133 -    4257    2.99    4133 -    4255
  1 +   6 CDSi    4377 -    4548    1.95    4378 -    4548
  1 +   7 CDSi    5608 -    5718    0.58    5608 -    5718
  1 +   8 CDSi    5805 -    5930    2.78    5805 -    5930
  1 +   9 CDSi    6255 -    6458    2.09    6255 -    6458
  1 +  10 CDSi    6543 -    6713    0.53    6543 -    6713
  1 +  11 CDSi    7091 -    7252    3.20    7091 -    7252
  1 +  12 CDSi    7344 -    7538    2.39    7344 -    7538
  1 +  13 CDSi    7753 -    7899    1.25    7753 -    7899
  1 +  14 CDSi    9203 -    9295    1.27    9203 -    9295
  1 +  15 CDSi    9569 -    9652    1.77    9569 -    9652
  1 +  16 CDSi    9726 -    9929    2.82    9726 -    9929
  1 +  17 CDSi   10031 -   10054    1.84   10031 -   10054
  1 +  18 CDSi   10281 -   10369    1.24   10281 -   10367
  1 +  19 CDSi   11243 -   11399    1.54   11244 -   11399
  1 +  20 CDSi   11487 -   11684    2.34   11487 -   11684
  1 +  21 CDSi   12136 -   12591    3.62   12136 -   12591
  1 +  22 CDSi   14431 -   14590    2.76   14431 -   14589
  1 +  23 CDSi   14661 -   14709    0.76   14663 -   14707
  1 +  24 CDSi   15232 -   15403    4.36   15233 -   15403
  1 +  25 CDSi   15913 -   16029    1.80   15913 -   16029
  1 +  26 CDSi   16171 -   16284    1.65   16171 -   16284
  1 +  27 CDSi   17296 -   17406    0.90   17296 -   17406
  1 +  28 CDSi   17475 -   17600    1.68   17475 -   17600
  1 +  29 CDSi   17772 -   17975    4.02   17772 -   17975
  1 +  30 CDSi   18060 -   18230    1.82   18060 -   18230
  1 +  31 CDSi   18614 -   18775    2.16   18614 -   18775
  1 +  32 CDSi   18867 -   19034    0.98   18867 -   19034
  1 +  33 CDSi   19670 -   19774    3.96   19670 -   19774
  1 +  34 CDSi   20075 -   20158    1.47   20075 -   20158
  1 +  35 CDSi   20232 -   20435    1.78   20232 -   20435
  1 +  36 CDSi   20522 -   20622    2.06   20522 -   20620
  1 +  37 CDSi   20718 -   20858    1.55   20719 -   20856
  1 +  38 CDSl   21566 -   21752    5.28   21567 -   21749
  1 +     PolA   24311              6.56
 
  2 -     PolA   23286              3.39
  2 -   1 CDSl   24536 -   24861    3.98   24539 -   24859
  2 -   2 CDSi   25150 -   25228    4.26   25151 -   25228
  2 -   3 CDSi   25296 -   25419    1.41   25296 -   25418
  2 -   4 CDSi   25494 -   25618    1.66   25496 -   25618
  2 -   5 CDSi   25697 -   25768    0.82   25697 -   25768
  2 -   6 CDSi   25877 -   25960    1.58   25877 -   25960
  2 -   7 CDSi   26522 -   26615    1.06   26522 -   26614
  2 -   8 CDSi   27399 -   27626    1.53   27401 -   27625
  2 -   9 CDSi   27747 -   27793    0.94   27749 -   27793
  2 -  10 CDSi   28430 -   28553    2.21   28430 -   28552
  2 -  11 CDSi   30488 -   30561    2.72   30490 -   30561
  2 -  12 CDSf   31336 -   31347    5.60   31336 -   31347
 
  3 -     PolA   35164              1.87
  3 -   1 CDSl   35717 -   36199    3.93   35720 -   36199
  3 -   2 CDSi   36276 -   36443    1.04   36276 -   36443
  3 -   3 CDSi   36758 -   36892    1.88   36758 -   36892
  3 -   4 CDSi   37550 -   37641    2.97   37550 -   37639
  3 -   5 CDSi   38179 -   38320    3.45   38180 -   38320
  3 -   6 CDSi   38926 -   39043    1.87   38926 -   39042
  3 -   7 CDSf   39473 -   39582    8.77   39475 -   39582
 
Predicted proteins:
>FGENES 1.5 >Seq_name:all     1 Multiexon gene    2112 -   21752    1800 a Ch+
MDMKSEIVEKQNLRWLGHLDGHHRSADGHCERAGESSDVYRVWSKQHLRSRYAEILHLLL
HLGVCCAGSGVPADVSVDPNGRAAGQTNSRVVFPRHHAAGHQLLLTSFTSKEQTAYAKAG
AVAAEVLSSIRTVFAFSGQRKAIKRYHKNLEDARDMGIKKGVAANTATGFSFLMIYLSYA
LAFWYGTTLVLNKEYTIGNLLTKPNIDSFSEDGYKPEYIKGDIVFQNIHFSYPSRPEIKI
LNDMSFHVRNGQTIALVGSSGCGKSTTIQLLQRFYDPQKGSIFIDGHDIRSLNIRYLREM
IGVVSQEPVLFATTITENIRYGRLDVTQEEIERATKESNAYDFIMNLPDKFETLVGDRGT
QLSGGQKQRIAIARALVRNPKILLLDEATSALDAESETIVQAALDKVRLGRTTIVIAHRL
STIRNADIIAGFSNGEIVEQGTHSQLMEIKGVYHGLVTMQSFQKLEDLEDSDYEPWVAEK
SQLIESFSQSSLQRRRSTRGSLLAVSEGTKEEKEKFECDQDNIEEDENVPPVSFFKVMRY
NVSEWPYILVGTICAMINGAMQPVFSIIFTEIIMFWGFQGFCFSKSGEILTLNLRLKAFI
SMMRQDLSWYDNPKNTVGALTTRLAADAAHVQGAAGVRLAVMTQNFANLGTSIIISFVYG
WELTLLILAVVPILAVAGAAEVKLLTGHAAEDKKELEMAGKIATEAIENAMIFFVYAACF
RFGAWLIEAGRMDVEGVFLVVMTMLYGAMAVGEANTYAPNFAKAKISASHLTMLINRQPA
IDNLSEEEARLEKYDGNVLFEDVKFNYPSRPDVPVLQGLNLEVQKGETLALVGSSGCGKS
TTIQLLERFYDPREGRVLLDGVDVKQLNVHWLRSQIGIVSQEPVLFDCSLAENIAYGDNS
RSVSMDEIVAAAKAANIHSFIEGLPQVAAVNQGKWLIPHLIDSHGAAHDHLHHIQTVSEQ
RYDTQAGDKGTQLSGGQKQRVAIARAIIRNPKLLLLDEATSALDTESEKFRFADRWDVVL
LISGTVMAMVNGTVMPLMCIVFGEMTDSFIYADMAQHNASGWNSTTTILNSTLQEDMQSD
VYKIQEGIGDKVGLLIQAYTTFITAFIIGFTTGWKLTLVILAVSPALAISAAFFSKIPQE
PAGRKGRGSEEGHLLQHRHGLHLPDDLPVLCSGLLVFFVVLIGAFSVGQTSPNIQNFASA
RGAAYKVYSIIDNKPNIDSFSEDGFKPDFIKGDIEFKNIHFNYPSRPEVKILNNMSLSVK
SGQTIALVGSSGCGKSTTIQLLQRFYDPEEGAVFIDGHDIRSLNIRYLREMIGVVSQEPV
LFATTITENIRYGRLDVTQEEIERATKESNAYDFIMNLPDKFETLVGDRGTQLSGGQKQR
IAIARALVRNPKILLLDEATSALDAESETIVQAALDKVRLGRTTIVVAHRLSTIRNADII
AGFSNGKIVEQGTHSQLMEIKGVYHGLVTMQTFHNVEEENTAMSELSAGEKSPVEKTVSQ
SSIIRRKSTRGSSFAASEGTKEEKTEEVFADPDRDSVRRKSEFISLMFVVIGCVSFVTMF
LQDLSWYDNPQNTVGALTTRLAADAAQVQGAAGVRLATIMQNFANLGTSIIIAFVYGWEL
TLLILAVVPLIAAAGAAEIKLLAGHAAKDKKELEKAGKIATEAIENVRTVVSLSREPKFE
CLYEENLRVPYKNSQKKAHVYGLTYSFSQAMIYFAYAACFRFGAWLIEAGRMDVEGVFLV
VSAVLYGAMAVGEANTFAPNYAKAKMAASYLMMLINKKPAIDNLSEEGTSPVNTQDPAQR
>FGENES 1.5 >Seq_name:all     2 Multiexon gene   24536 -   31347     462 a Ch-
MSKQAEFEKIAEDVKKVKTRPTDQELLDLENKWLINCQNQFQNGPSSTKVVCLPCPSHHW
KLAFLSIWKQFVLLRPRRNSRPQRTLPPLSSQMFNTVLSSQLEQWWLDAAYLEGRSPSQL
TVNFAGPAPYLEHCWPPAEGTALERASICSWHMLQYWNLIRTQLSYVRQCCDGNPEGEGV
SALTTEERTRWAKHAPYDAMVLVTMCWYVDQRIQSTGGKWKELVFTVDEKVRSDIGRAKK
QYFESDLQVVCYAFTAFGKAAIKQKKLHPDTFIQLAMQLAYFKLHQRPGCCYETAMTRKF
YHGRTETMRPCTVEAVKWCTAMTDPSCEDNAKRKAMQLAFEKHNNLMAEAQEGRVAVAET
LCCRPAWWATPQFWARWRRWFPTATASSTVSERTGGPTDGSLCCRHGLTHHIQSYPLCTL
TRRIVISISAWKSCRQTDAVSLFNVFSSCLHEMLHLATTSQL
>FGENES 1.5 >Seq_name:all     3 Multiexon gene   35717 -   39582     415 a Ch-
MAEDSESAASQQSLELDDQDTCGIDGDNEEENEHLQGSPGGDLGAKRKKKKQKRKKEKPS
SGGAKSDSASDSQEFKNPTLPIQKLQDIQRAMELLSCQGPAKSIDEAAKHKYQFWDTQPV
PKLTEGVVHVTERELRGGRRQHVQIRLFAKLSQMVLAPFSEPQEACGSEVLPPEQKHDPA
TDHEALQITRRKQHQPDAQGAGGALTDFASFYTLPSTVMHHPLHRSLKAAYSFYNVHTQT
PLLDLMNDALILAKLKGFDVFNALDLMENKVFLEKLKFGIGDGNLQYYLYNWKCPSMEPD
KVRINNACISISRRRCFCSLQPWLPFRSASSFSSRVPQGCYTNTGPKVTTDRGSCHLDMQ
VAQTLKMKRIQPTRRPSGVPPPPPLSDNTTPPQFAGRGGDNSSIINILNVKSCYA