1 DIM SEQ$(20):DISK$="B:":PRTFLG=0:SCRFLG=1:MAXL=3000:PLAFLG=1
5 COMMON LENGTH,SEQ$(),TITLE$,PRTFLG,SCRFLG,PLAFLG,DISK$,MAST,MAXL
6 CLOSE:KEY OFF
10 KEY(1) ON:ON KEY(1) GOSUB 310
20 KEY(2) ON:ON KEY(2) GOSUB 320
30 KEY(3) ON:ON KEY(3) GOSUB 330
40 KEY(4) ON:ON KEY(4) GOSUB 340
50 KEY(5) ON:ON KEY(5) GOSUB 350
60 KEY(6) ON:ON KEY(6) GOSUB 360
70 KEY(7) ON:ON KEY(7) GOSUB 370
80 KEY(8) ON:ON KEY(8) GOSUB 380
90 KEY(9) ON:ON KEY(9) GOSUB 390
95 KEY(10) ON:ON KEY(10) GOSUB 395
98 GOSUB 100
99 GOTO 99
100 CLS:PRINT:PRINT:PRINT:COLOR 9,0:PRINT "KEY";:COLOR 7,0:PRINT "   ";:COLOR 9,0:PRINT "FUNCTION";:COLOR 7,0:PRINT "     ";:COLOR 9,0:PRINT "DESCRIPTION";:COLOR 7,0:PRINT:PRINT
110 PRINT " F1    MENU         Prints page two of this list"
120 PRINT " F2    ENTER        Accepts your sequence from the keyboard"
130 PRINT " F3    EDIT         Allows you to make changes in a file"
140 PRINT " F4    READ         Reads a file containing your sequence"
150 PRINT " F5    PRINT        Prints your sequence"
160 PRINT " F6    REST         Finds restriction enzyme sites in your sequence"
170 PRINT " F7    SEARCH       Finds all positions of a specified sequence"
180 PRINT " F8    TRANS        Translates your sequence in all possible frames"
190 PRINT " F9    COMPII       Compares two files"
195 PRINT "F10    CONTROL      Changes the parameters which control program flow"
196 PRINT:PRINT:PRINT:PRINT "Depress the apropriate function key to continue."
200 RETURN
310 MAST=1:CHAIN "PAGE2"
320 IF MAST=2 THEN GOTO 400 ELSE MAST=2:CHAIN MERGE "ENTER",400,DELETE 500-1000
330 IF MAST=3 THEN GOTO 400 ELSE MAST=3:CHAIN MERGE "EDIT",400,DELETE 500-1000
340 IF MAST=4 THEN GOTO 400 ELSE MAST=4:CHAIN MERGE "READ",400,DELETE 500-1000
350 IF MAST=5 THEN GOTO 400 ELSE MAST=5:CHAIN MERGE "PRINT",400,DELETE 500-1000
360 IF MAST=6 THEN GOTO 400 ELSE MAST=6:CHAIN MERGE "REST",400,DELETE 500-1000
370 IF MAST=7 THEN GOTO 400 ELSE MAST=7:CHAIN MERGE "SEARCH",400,DELETE 500-1000
380 IF MAST=8 THEN GOTO 400 ELSE MAST=8:CHAIN MERGE "TRANS",400,DELETE 500-1000
390 IF MAST=9 THEN GOTO 400 ELSE MAST=9:CHAIN MERGE "COMPII",400,DELETE 500-1000
395 IF MAST=10 THEN GOTO 400 ELSE MAST=10:CHAIN MERGE "CONTROL",400,DELETE 500-1000
400 CLS:KEY(1) ON:ON KEY(1) GOSUB 6:GOSUB 500
410 PRINT:PRINT "Strike any key to continue.":
420 A$=INKEY$:IF A$="" THEN 420 ELSE GOTO 10
500 IF PRTFLG=1 THEN OPEN "LPT1:" FOR OUTPUT AS #2
510 IF PRTFLG=2 THEN INPUT "Enter the file which is to recieve the output: ",A$:OPEN DISK$+A$ FOR OUTPUT AS #2:PRINT
520 RESTORE:READ NENZ
530 IF PRTFLG THEN PRINT #2,TITLE$:PRINT #2,""
540 PRINT "Sites searched for:":PRINT:IF PRTFLG THEN PRINT #2,"Sites searched for:":PRINT #2,""
550 FOR I=1 TO NENZ
560 READ ENZ$,CUT,NPAL:FOR J=1 TO NPAL:READ PAL$:NEXT
570 PRINT USING "\      \";ENZ$;:IF PRTFLG THEN PRINT #2,USING "\      \";ENZ$;
580 IF I MOD 9 = 0 THEN PRINT:IF PRTFLG THEN PRINT #2,""
590 NEXT
600 PRINT:PRINT:PRINT "Sites found:":PRINT:IF PRTFLG THEN PRINT #2,"":PRINT #2,"":PRINT #2,"Sites found:":PRINT #2,""
610 RESTORE:READ NENZ:LFFLG=10
620 FOR K=1 TO NENZ
630 READ ENZ$,CUT,NPAL
640 NAMFLG=1:F=0
650 FOR I=1 TO NPAL
660 R=1:J=1:READ PAL$
670 IF (R+1)*250>LENGTH THEN SEARCH$=SEQ$(R):GOTO 690
680 SEARCH$=SEQ$(R)+LEFT$(SEQ$(R+1),LEN(PAL$)-1)
690 P=INSTR(J,SEARCH$,PAL$)
700 IF P>0 THEN IF NAMFLG THEN NAMFLG=0:PRINT USING "\     \";ENZ$;:IF PRTFLG THEN PRINT #2,USING "\     \";ENZ$;
710 IF P>0 THEN IF F=10 THEN F=0:PRINT:PRINT "       ";:IF PRTFLG THEN PRINT #2,"":PRINT #2,"       ";
720 IF P>0 THEN J=P+1:F=F+1:PRINT USING "  #### ";(R-1)*250+P+CUT;:IF PRTFLG THEN PRINT #2,USING "  #### ";(R-1)*250+P+CUT;:GOTO 690 ELSE GOTO 690
730 IF R*2500) THEN 790
770 LFFLG=1:BEEP
780 A$=INKEY$:IF A$="" GOTO 780
790 NEXT K
800 RETURN
810 DATA 64
820 DATA AatII,5,1,GACGCT,AccI,2,4,GTCTAC,GTCGAC,GTATAC,GTAGGC,AhaIII,0,1,TTTAAA,AluI,2,1,AGCT,AsuI,1,4,GGACC,GGCCC,GGGCC,GGTCC,AvaI,1,4,CCCGAG,CCCGGG,CTCGAG,CTCGGG,AvaII,1,2,GGTCC,GGACC
830 DATA BalI,3,1,TGGCCA,BamHI,1,1,GGATCC,BclI,1,1,TGATCA,BglII,1,1,AGATCT
840 DATA BssHI,1,1,GCGCGC,BstNI,2,2,CCTGG,CCAGG,CfoI,3,1,GCGC,ClaI,2,1,ATCGAT,DdeI,1,4,CTAAG,CTCAG,CTGAG,CTTAG,DraI,3,1,TTTAAA
850 DATA EcoRI,1,1,GAATTC,EcoRII,0,2,CCTGG,CCAGG,EcoRV,5,1,GATATC,Fnu4HI,2,4,GCAGC,GCCGC,GCGGC,GCTGC,FnuDII,2,1,CGCG
860 DATA HaeII,5,4,AGCGCC,AGCGCT,GGCGCC,GGCGCT,HaeIII,2,1,GGCC,HgiAI,5,4,GTGCTC,GTGCAC,GAGCTC,GAGCAC,HhaI,3,1,GCGC
870 DATA HincII,3,4,GTCAAC,GTCGAC,GTTAAC,GTTGAC,HindIII,1,1,AAGCTT,HinfI,1,4,GAATC,GACTC,GAGTC,GATTC
880 DATA HpaI,3,1,GTTAAC,HpaII,1,1,CCGG,KpnI,5,1,GGTACC,MboI,0,1,GATC,MluI,1,1,ACGCGT,MspI,1,1,CCGG,MstI,3,1,TGCGCA
890 DATA NaeI,1,1,GCCGGC,NarI,2,1,GGCGCC,NciI,2,2,CCGGG,CCCGG,NcoI,1,1,CCATGG,NdeI,2,1,CATATG,NruI,3,1,TCGCGA
900 DATA PaeR7I,1,1,CTCGAG,PstI,5,1,CTGCAG,PvuI,4,1,CGATCG,PvuII,3,1,CAGCTG,RsaI,2,1,GTAC,SacI,5,1,GAGCTC,SacII,4,1,CCGCGG
910 DATA SalI,1,1,GTCGAC,Sau3AI,0,1,GATC,Sau96I,1,4,GGACC,GGCCC,GGGCC,GGTCC,ScrFI,2,4,CCAGG,CCCGG,CCGGG,CCTGG,SmaI,3,1,CCCGGG,SphI,5,1,GCATGC
920 DATA SspI,3,1,AATATT,StuI,3,1,AGGCCT,SstII,4,1,CCGCGG,TaqI,1,1,TCGA,ThaI,2,1,CGCG,XbaI,1,1,TCTAGA
930 DATA XhoI,1,1,CTCGAG,XmaI,1,1,CCCGGG,XorII,4,1,CGATCG
1000 END