
genewise output
Score 35.19 bits over entire alignment
Scores as bits over a synchronous coding model

Warning: The bits scores is not probablistically correct for single seqs
See WWW help for more info

SPP00000123_2.0   52 PSPAGTSPLVLTPAPAQIPTLVPTPALARIPRLVPPPAPAWIPTPVPTP 
                     P PA TSP    PAP   P   P P L          AP+ +   +P+  
                     PRPA-TSPYPSGPAPDSPPR--PPPPLGPPQATATAVAPS-LARELPSL 
gi|406021823|g286502 cccg atctctgcgcgtccc  cccccgcccgagagggct cgcgcctc 
                     cgcc cccaccgcccacccg  cccctgccaccccctccc tcgatcct 
                     cacc ccgtgtctcacagcg  gggacgttgcccccccct gccgcccc 


SPP00000123_2.0  101 VPVRNPTPVPTPARTLTPP-VRVPAPAP                      
                     +P R P P P P+R +T P V  P PAP                      
                     LPHRPPPPPPLPSRCVTAPCVTSPGPAP                      
gi|406021823|g286637 cccccccccccctctgagctgaacgcgc                      
                     tcagcccccctccggtcccgtcgcgccc                      
                     ctcaagggaggggccccggcctctcccc                      


//
>gi|406021823|gb|JH823424.1|:subseq(5298414,300000).pep
PRPATSPYPSGPAPDSPPRPPPPLGPPQATATAVAPSLARELPSLLPHRPPPPPPLPSRC
VTAPCVTSPGPAP
//
>gi|406021823|gb|JH823424.1|:subseq(5298414,300000).[286502:286720].sp
CCCCGACCCGCCACCTCCCCGTATCCGTCTGGCCCTGCCCCAGACTCACCGCCCCGGCCG
CCGCCGCCACTCGGGCCTCCTCAGGCCACCGCCACCGCCGTCGCCCCCTCTCTGGCCCGC
GAGCTCCCCTCCCTCCTCCCTCACCGACCACCGCCGCCGCCACCGCTGCCGTCGCGCTGC
GTCACCGCGCCGTGCGTCACTAGCCCTGGCCCCGCCCCC
//
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	match	286502	286720	36.19	+	.	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-1
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	cds	286502	286720	0.00	+	0	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-1
//

genewise output
Score 224.30 bits over entire alignment
Scores as bits over a synchronous coding model

Warning: The bits scores is not probablistically correct for single seqs
See WWW help for more info

SPP00000123_2.0    1 MNNQARTPAPSSARTSTSVRASTPTRTPTPLRTPTPVRTRTPIRTLTPV 
                     M+NQAR P PS  RT T VRA T  R P   R+PT +R    +RT  PV 
                     MSNQARAPTPSPVRTPTQVRAPTTVRDPISERSPTLIRAPISVRTPNPV 
gi|406021823|-123568 aaacgcgcactcgaacacgcgcaagcgcatgctcacacgcatgcacacg 
                     tgaacgcccccctgcccatgcccctgactcagcccttgcctctgccact 
                     gtcgggcacacacgcgtgtgcgtacgtgcaggcatgcgcatgcgcgccc 


SPP00000123_2.0   50 LTPSPAGTSPLVLTPAPAQIPTLVPTPALARIPRLVPPPAPAWIPTPVP 
                       P+ A        P   +  T V  P   RIP  V  P P   PTPV  
                     HAPTSAHPPTSAQAPTHFRAVTPVRAPTPVRIPTPVLSPTPVLSPTPVR 
gi|406021823|-123421 cgcatgcccatgcgcactcggacgcgcacgcacacgctcacgctcacgc 
                     acccccacccccacccatgctcctgcccctgtcccttccccttcccctg 
                     ttaatccagaacgagcccgtgtacgcctacgcgcgcgcacgcgcacgcg 


SPP00000123_2.0   99 TPVPVRNPTPVPTPARTLTP-PVRVPAPAPAQLLAGIRAALPVLDSYLA 
                      P PVR PTPV TP    TP PVR P P  A   A   A +P        
                     GPTPVRTPTPVRTPTPVRTPTPVRTPTPVHASSTA--QALIPAAIPAEL 
gi|406021823|-123274 gcacgaacacgcacacgcacacgcacacgcgtaag  cgcacggacggc 
                     gccctgcccctgcccctgcccctgcccctaccgcc  acttccctccat 
                     gacgcgcacacgcacacgcacacgcacacccgtac  gcacatgctggc 


SPP00000123_2.0  147 PALPLDPPPEPAPELPLLPEEDPEPAPSLKLIPSVSSEAGPAPGPLPTR 
                     P     P P PAPE  L  E+DP  + +    PS++S    A G  P   
                     PGPESFPTPVPAPEPTLSSEKDPSRSSN----PSITSLTELAQGSFPAH 
gi|406021823|-123133 cgcgttcacgcgcgcatttgagctctta    ctaaacagcgcgttcgc 
                     cgcactccctcccacctccaaaccgcca    cctcgtcatcagctcca 
                     tagactgcaactagatgttggttggcct    accctacgtcgattatc 


SPP00000123_2.0  196 TPLAANSPGPTLDFTFRADPSAIGLADPPIPSPVPSPILGTIPSAISLQ 
                     TP A +  G TLD     D     L D   P P+P P+LGT  S I L  
                     TPSATDILGCTLDPIPTVDTLTTTLMD-STPGPIPVPVLGTKMSTI-LP 
gi|406021823|-122998 actgagacgtatgcacaggacaaatag tacgcacgcgcgaaataa tc 
                     cccccattggctactcctactccctta cccgctctcttgcatcct tc 
                     taacctaggccgtctagacagccgggt cccatcagtcggcggagc at 


SPP00000123_2.0  245 NCTETFPSSSENFALDKRVLIRVTY                         
                          + S+SENF +D +VLIRV Y                         
                     VSNNPLASTSENFQMDNKVLIRVIY           C:W[tgg]      
gi|406021823|-122857 gtaaccgtaagatcagaagcacgatTGGTGAGGC  Intron 1      
                     tcaactcccgaatataaatttgtta  <2-----[122780:120019  
                     ttccagccctgccagccatttagcc                         


SPP00000123_2.0  270     GLXSYSLRYILLKKSLEQQFPNHLLF                    
                         G  S SL+YILLKKSLEQ FPNHLLF                    
                         GSLS!SLQYILLKKSLEQLFPNHLLF                    
gi|406021823|-120021 AAGGgtct5tcctaccaaacgcctcaccct                    
                     -2> gctc ctaatttaagtaattcaattt                    
                         ctcc tggctagagcggggtatcgct                    


SPP00000123_2.0  297                        EEDRAAQATGEFEVFVNGRLVHSKK  
                                            EE  +AQATGEFEVFV+ +LVHSKK  
                                            EEIISAQATGEFEVFVDDKLVHSKK  
gi|406021823|-119937 GTAAGTA  Intron 2   CAGggaatgcgaggtggtgggacgctaa  
                     <0-----[119937:11983-0>aattccaccgatatttaaattacaa  
                                            ggttttgtcggtagtgtcagctagg  


SPP00000123_2.0  322                        RGDGFVNESRLQKIVSVIDEEIKK   
                                            +GDGFVN++RLQKIVS I E +KK   
                                            KGDGFVNDTRLQKIVSSIHEALKK   
gi|406021823|-119755 GTGACTC  Intron 3   CAGagggtgagaaccaagaaacggcaa   
                     <0-----[119755:11966-0>agagttaacgtaattggtaactaa   
                                            attttgtccgtgatgctctagcga   


//
Making a W in phase 2 intron
>gi|406021823|gb|JH823424.1|:subseq(5298414,300000).pep
MSNQARAPTPSPVRTPTQVRAPTTVRDPISERSPTLIRAPISVRTPNPVHAPTSAHPPTS
AQAPTHFRAVTPVRAPTPVRIPTPVLSPTPVLSPTPVRGPTPVRTPTPVRTPTPVRTPTP
VRTPTPVHASSTAQALIPAAIPAELPGPESFPTPVPAPEPTLSSEKDPSRSSNPSITSLT
ELAQGSFPAHTPSATDILGCTLDPIPTVDTLTTTLMDSTPGPIPVPVLGTKMSTILPVSN
NPLASTSENFQMDNKVLIRVIYWGSLSXSLQYILLKKSLEQLFPNHLLFEEIISAQATGE
FEVFVDDKLVHSKKKGDGFVNDTRLQKIVSSIHEALKK
//
>gi|406021823|gb|JH823424.1|:subseq(5298414,300000).[123568:120004].sp
ATGAGTAACCAGGCGCGGGCCCCAACCCCATCCCCAGTCAGGACCCCGACTCAGGTTCGG
GCCCCGACTACAGTCCGGGATCCGATCTCAGAGCGGTCCCCAACTCTGATCCGGGCCCCA
ATTTCGGTCCGGACCCCGAACCCCGTCCATGCTCCAACATCTGCCCACCCACCGACATCA
GCCCAGGCACCGACCCACTTCCGGGCTGTGACTCCAGTCCGGGCCCCCACTCCAGTCCGG
ATCCCGACCCCGGTCCTGTCCCCAACCCCGGTCCTGTCCCCAACCCCGGTCCGGGGGCCA
ACCCCGGTCAGGACCCCAACCCCAGTCCGGACCCCAACCCCAGTCCGGACCCCAACCCCA
GTCCGGACCCCAACCCCAGTCCACGCCTCGAGTACAGCCCAGGCCCTAATCCCAGCTGCG
ATCCCTGCGGAGCTCCCTGGACCGGAATCCTTTCCGACCCCAGTACCCGCTCCAGAGCCA
ACTTTGTCTTCTGAGAAGGATCCTTCGCGGTCCTCCAATCCATCCATCACCAGTCTAACC
GAGCTTGCCCAGGGATCTTTTCCAGCTCACACTCCATCAGCCACCGATATACTGGGGTGC
ACCTTGGATCCCATTCCAACGGTAGACACACTGACCACCACGTTGATGGATTCCACCCCC
GGACCTATCCCAGTGCCTGTCCTGGGGACCAAGATGTCAACGATCTTACCTGTTTCTAAC
AACCCACTGGCCTCCACCAGTGAGAACTTCCAAATGGACAACAAAGTTCTTATTCGAGTG
ATCTACTGGGGCTCTCTCTCC
>gi|406021823|gb|JH823424.1|:subseq(5298414,300000).[120000:119588].sp
TCTCTGCAGTACATTCTACTGAAAAAGAGCCTGGAGCAGCTGTTTCCAAATCACCTGCTC
TTTGAGGAGATTATTTCTGCTCAGGCTACCGGGGAGTTTGAAGTGTTTGTGGATGACAAA
CTGGTCCATTCAAAGAAGAAAGGTGATGGTTTTGTGAATGACACCAGGCTTCAGAAAATT
GTGAGCAGTATCCATGAAGCGCTCAAGAAA
//
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	match	123568	120006	142.33	-	.	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-1
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	cds	123568	122781	0.00	-	0	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-1
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	intron	122780	120019	0.00	-	.	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-1
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	cds	120018	120006	0.00	-	1	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-1
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	match	120000	119590	85.96	-	.	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-2
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	cds	120000	119938	0.00	-	0	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-2
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	intron	119937	119831	0.00	-	.	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-2
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	cds	119830	119756	0.00	-	0	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-2
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	intron	119755	119662	0.00	-	.	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-2
gi|406021823|gb|JH823424.1|:subseq(5298414,300000)	GeneWise	cds	119661	119590	0.00	-	0	gi|406021823|gb|JH823424.1|:subseq(5298414,300000)-genewise-prediction-2
//
