
genewise output
Score 229.82 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

gi|12408011|gb|    1 MQALWPLLLSA-LPALLGASS-LFVEKESNGSRICKPAPQWEIDGKTPM 
                     M+ L PL L A LP LL A++ L+VE +S+ SRICKPAP WE+ G  PM 
                     MRCLLPLWLGASLPGLLWAAAVLLVEGDSDPSRICKPAPHWEVGGIAPM 
GeneScaffold_40 9928 aatcccctcggaccgcctggggctggggagctaatacgcctggggagca 
                     tggttctgtgcgtcgttgcccttttagagaccgtgacccagatggtcct 
                     ggtcgcgggactgttaggcaactggagccctcaccgtcctgggaaaacg 


gi|12408011|gb|   48 KELLGNVVVVALLKASXHFCLTQAA                         
                      ELLGNVVVVALLKASX FCLTQA+                         
                     PELLGNVVVVALLKASXQFCLTQAS           R:K[aag]      
GeneScaffold_4010075 cgccgagggggccagatcttcacgtAAGTAAGCT  Intron 1      
                     cattgattttcttacggatgtcacc  <2-----[10152:10319]   
                     agggatattgggggccagctcaggc                         


gi|12408011|gb|   73     LGDLRDKLANGGLTNISFMVVNEQDSQSRAMYWELKRRTAQDIPV 
                         +G LR+KL+   LT+++FM+VNE++ QSRAMYWELKRR   ++PV 
                         IGHLREKLSRSNLTDVAFMIVNEREFQSRAMYWELKRRA!PNVPV 
GeneScaffold_4010317 GAGGagcccgacacaacagggtaagagcgtctcgattgcaaag4cagcg 
                     -2> tgatgaatgggatcatcttttaagatacgctagataggc catct 
                         tacgtaggccccgccggcgcgcgcgcgcgcgcggggggc tcccc 


gi|12408011|gb|  119 YQQSPLQNDVWEILEGDKDDFLVYD                         
                     YQQ PLQ+DVWEIL+GDKDDFLVYD                         
                     YQQGPLQDDVWEILDGDKDDFLVYD           R:R[agg]      
GeneScaffold_4010457 tccgctcgggtgacgggaggtcgtgAGGTAAAGA  Intron 2      
                     aaagctaaatgattagaaaatttaa  <2-----[10534:10860]   
                     cggctagcccggcccacaccctgtc                         


gi|12408011|gb|  144     CGYLTFHIVLPFSFLHYPYIEAAIRATYHKNMCNCSLN        
                         CG LTFHIVLP+SFL  PY+EAA+RAT  K++CNC+++        
                         CGLLTFHIVLPYSFLTQPYVEAAVRATSLKDICNCTVS        
GeneScaffold_4010858 CAGGtgctatcagcctatcacctgggggagatcagatataga        
                     -2> ggttctatttcagttcacatacctgccctaatgagctg        
                         ttcgccctgaccccccgcctgacggccccacccccttt        


//
Making a K in phase 2 intron
Making a R in phase 2 intron
>GeneScaffold_400:subseq(6319,20000).pep
MRCLLPLWLGASLPGLLWAAAVLLVEGDSDPSRICKPAPHWEVGGIAPMPELLGNVVVVA
LLKASXQFCLTQASKIGHLREKLSRSNLTDVAFMIVNEREFQSRAMYWELKRRAXPNVPV
YQQGPLQDDVWEILDGDKDDFLVYDRCGLLTFHIVLPYSFLTQPYVEAAVRATSLKDICN
CTVS
//
>GeneScaffold_400:subseq(6319,20000).[9928:10437].sp
ATGAGGTGTCTCCTGCCCCTGTGGCTGGGAGCCAGTCTGCCTGGTCTACTGTGGGCCGCA
GCAGTCCTTTTGGTGGAAGGGGACAGCGACCCTTCCAGAATCTGCAAGCCTGCCCCCCAT
TGGGAGGTGGGAGGAATAGCACCCATGCCAGAGCTGCTGGGAAATGTAGTTGTTGTGGCG
CTGCTGAAGGCCAGCTGACAGTTCTGTCTCACACAGGCGTCCAAGATTGGACACCTGCGT
GAAAAGCTGAGCCGCAGCAACCTGACCGACGTGGCGTTCATGATCGTGAACGAGCGCGAG
TTCCAGTCCCGGGCCATGTACTGGGAGCTGAAGAGGAGGGCC
>GeneScaffold_400:subseq(6319,20000).[10442:10975].sp
CCTAACGTCCCCGTCTACCAGCAGGGCCCTTTACAGGACGACGTCTGGGAGATCCTCGAC
GGAGACAAAGACGACTTCCTTGTGTATGACAGGTGTGGTCTCTTGACCTTCCACATTGTG
CTACCCTACAGCTTCCTCACCCAGCCCTACGTTGAGGCAGCCGTGAGGGCCACCTCCCTC
AAAGACATCTGCAACTGCACTGTTAGT
//
GeneScaffold_400:subseq(6319,20000)	GeneWise	match	9928	10437	105.70	+	.	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-1
GeneScaffold_400:subseq(6319,20000)	GeneWise	cds	9928	10151	0.00	+	0	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-1
GeneScaffold_400:subseq(6319,20000)	GeneWise	intron	10152	10319	0.00	+	.	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-1
GeneScaffold_400:subseq(6319,20000)	GeneWise	cds	10320	10437	0.00	+	1	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-1
GeneScaffold_400:subseq(6319,20000)	GeneWise	match	10442	10975	124.12	+	.	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-2
GeneScaffold_400:subseq(6319,20000)	GeneWise	cds	10442	10533	0.00	+	0	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-2
GeneScaffold_400:subseq(6319,20000)	GeneWise	intron	10534	10860	0.00	+	.	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-2
GeneScaffold_400:subseq(6319,20000)	GeneWise	cds	10861	10975	0.00	+	1	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-2
//

genewise output
Score 17.03 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

gi|12408011|gb|  256 SHQEHVH                                           
                     SH EHVH                                           
                     SHSEHVH                                           
GeneScaffold_40-6999 actgcgc                                           
                     gacaata                                           
                     ctaattc                                           


//
>GeneScaffold_400:subseq(6319,20000).pep
SHSEHVH
//
>GeneScaffold_400:subseq(6319,20000).[6999:6977].sp
AGCCATTCAGAACATGTTCAC
//
GeneScaffold_400:subseq(6319,20000)	GeneWise	match	6999	6979	17.03	-	.	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-1
GeneScaffold_400:subseq(6319,20000)	GeneWise	cds	6999	6979	0.00	-	0	GeneScaffold_400:subseq(6319,20000)-genewise-prediction-1
//
