Show restriction sites and translations


This program scans the input DNA sequence for restriction sites of the given enzymes. If a coding start is given, it will also translate the coding region (from the specified start to the first stop codon) and align the translated protein sequence along with the DNA sequence. If you don't supply enzymes, Rebase from NEB will be used to look up the enzyme cuttting patterns.

The following is an example output of the program.


       1 TGGAAAGGAGTGTAGGCTAATTCCTTGCTCTTCCACTTAAACACTATAGTTTCTGACTTG
         ACCTTTCCTCACATCCGATTAAGGAACGAGAAGGTGAATTTGTGATATCAAAGACTGAAC
                                                    ^                
         44 BdiSI

      61 ACCAACTCAGAGGACCCAGGTTCCACCATAGGAGAAGTGGGGAAGGGCTGTCATTCTCTT
         TGGTTGAGTCTCCTGGGTCCAAGGTGGTATCCTCTTCACCCCTTCCCGACAGTAAGAGAA
                    ^      ^                                         
         72 BcrI BcuAI Bfi105I, 79 BcrI

     121 TGGATAGATGTGGGGCCACAAAGTAGCTCAAGGCTGGACCAACATAGCACAGCTTTGTGA
         ACCTATCTACACCCCGGTGTTTCATCGAGTTCCGACCTGGTTGTATCGTGTCGAAACACT
                    ^^^                     ^                        
         132 BcrI, 133 Bfi105I, 134 BecAII Bfi458I, 156 BcuAI
         Bfi105I

     181 GCTATTGCCCACCAAATAAGTGAGGGGAAACCTTGACCCTTTTATAATTGGTATGCCCAG
         CGATAACGGGTGGTTTATTCACTCCCCTTTGGAACTGGGAAAATATTAACCATACGGGTC

     241 CCCTCTGATTATTGACTACCTTCCTTCTTTTAATGTTGCAGAGAATTAAGGAGCTAGAAG
         GGGAGACTAATAACTGATGGAAGGAAGAAAATTACAACGTCTCTTAATTCCTCGATCTTC
                                                              ^      
         294 BfaI

                                                                 MetA
     301 AAAGAATAGAAACCCAGAAGAGGCAAATAAAGGAGCTGGAAGAAAAGGTAAAACAGATGA
         TTTCTTATCTTTGGGTCTTCTCCGTTTATTTCCTCGACCTTCTTTTCCATTTTGTCTACT

         snGlyGluArgValCysAsnTrpArgLysGlyThrTrpAlaCysLeuThrSerHisTyrL
     361 ATGGGGAGAGGGTGTGCAACTGGAGGAAGGGGACTTGGGCTTGCCTGACATCACATTATA
         TACCCCTCTCCCACACGTTGACCTCCTTCCCCTGAACCCGAACGGACTGTAGTGTAATAT

         ysAsnProSerSerGlyLeuProValGluValArgProAlaAsnTrpProMetGlnSerA
     421 AGAACCCAAGCTCAGGCCTCCCAGTTGAGGTCAGGCCTGCAAATTGGCCCATGCAAAGCA
         TCTTGGGTTCGAGTCCGGAGGGTCAACTCCAGTCCGGACGTTTAACCGGGTACGTTTCGT
                       ^                  ^           ^              
         435 BecAII Bfi458I, 454 BecAII Bfi458I, 466 BecAII
         Bfi105I Bfi458I

         rgValGluThrAsnLysArgGluProValGlyProGluLeuTrpValLeuTrpAlaArgV
     481 GAGTGGAGACGAACAAAAGGGAGCCTGTTGGGCCAGAGCTGTGGGTACTCTGGGCCAGAG
         CTCACCTCTGCTTGTTTTCCCTCGGACAACCCGGTCTCGACACCCATGAGACCCGGTCTC
                            ^         ^^                    ^^       
         500 BcrI, 510 Bfi105I, 511 BecAII Bfi458I, 532 Bfi105I,
         533 BecAII Bfi458I

         alArgSerProSerHisSerLeuThrProValAlaLeuAlaLeuProGlnPheProLeuT
     541 TCAGGAGCCCCTCACACAGCCTCACCCCCGTAGCCCTTGCACTGCCTCAGTTTCCCCTCT
         AGTCCTCGGGGAGTGTGTCGGAGTGGGGGCATCGGGAACGTGACGGAGTCAAAGGGGAGA
            ^                                                        
         544 BcrI

         rpThrTyrMetLeuAsnGln
     601 GGACCTATATGTTGAACCAGTGACCTGGGGTCCTGATCTATGCTGGTGCCCATTGTGGTG
         CCTGGATATACAACTTGGTCACTGGACCCCAGGACTAGATACGACCACGGGTAACACCAC
         ^                          ^^     ^         ^               
         601 BcuAI Bfi105I, 628 BcrI, 629 BcuAI Bfi105I, 635 Bfi57I,
         645 BcrI

     661 CAGAGGGTTTAACCTTCCAGGTCCATCAACCTTGGCTGTCTGAAGATAAAGTTCCTGAAA
         GTCTCCCAAATTGGAAGGTCCAGGTAGTTGGAACCGACAGACTTCTATTTCAAGGACTTT
                            ^                                        
         680 BcuAI Bfi105I

     721 CACAGGCCATGATCCCCAAGAGGCACAGGAACATTTTGTCCCTGATCCCCAAGAAGTGTC
         GTGTCCGGTACTAGGGGTTCTCCGTGTCCTTGTAAAACAGGGACTAGGGGTTCTTCACAG
             ^     ^                                ^                
         725 BecAII Bfi458I, 731 Bfi57I, 764 Bfi57I

     781 TCCAGTACCAGAGATGCTAGGGTGCCTGCTCAAGCACTTTCTCCAGACCCTGACTGCAGC
         AGGTCATGGTCTCTACGATCCCACGGACGAGTTCGTGAAAGAGGTCTGGGACTGACGTCG
                         ^   ^                                ^      
         797 BfaI, 801 BcrI, 834 BdiSI

     841 CTGGCATGCAGGGCCTCTGGTCACTGGTATCAGCAGACTCAGTGCTCCTCAGACCAAGTT
         GACCGTACGTCCCGGAGACCAGTGACCATAGTCGTCTGAGTCACGAGGAGTCTGGTTCAA
                   ^^                                                
         851 Bfi105I, 852 BecAII Bfi458I

     901 GAAAAGTATGTGCCTAGAGAACCCTGCCCCTTGCAGGTCTCCATGCATTCATTTCAGGGC
         CTTTTCATACACGGATCTCTTGGGACGGGGAACGTCCAGAGGTACGTAAGTAAAGTCCCG
                      ^                                              
         914 BfaI

     961 AGTTCCATATCCTCTGCGATTTGAGGCAGG
         TCAAGGTATAGGAGACGCTAAACTCCGTCC


BcrI          GGNNCC             8:     72     79    132    500    544    628
                                       645    801
BcuAI         G^GWCC             5:     72    156    601    629    680
BdiSI         C^TRYAG            2:     44    834
BecAII        GG^CC              8:    134    435    454    466    511    533
                                       725    852
BfaI          C^TAG              3:    294    797    914
Bfi105I       GGNCC             10:     72    133    156    466    510    532
                                       601    629    680    851
Bfi458I       GGCC               8:    134    435    454    466    511    533
                                       725    852
Bfi57I        ^GATC              3:    635    731    764


  Following enzymes don't cut:

	BctI        BcuI        BdaI        BdiI        BepI        BetI
	BfaSII      

	Note: Tst1, Ava2 and Gri1i were not recognized!
	Make sure that the names are spelled corretly without spaces.

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