hai monks, i have one sequence as follows,

MAIFNSLVFLPASFTLSYMWNFGSMLGIMLMSQILTGFFLTFYYTAGEAFSSVQYIMFEVNLGWLLRIMH
+SNGASMFFLFIYLHIFKGLIYGSYRLIGVWLSGIFIYFLLMGIAFTGYVLIWGQMSYWAAVVITSLMTS
+VPYLGKYLVWWGSFSVCENTLKFFYSVHFILPWSLMVLVVFHLFFLHFTGSSSSLYCHGDYDKIHFFPS
+FWLKDGFDIFFYFFLILFSLYFSFDLSDPMIFVESDSMAS
[download]

output of the above code should be like in this format;

MAIFNSLVFL PASFTLSYMW NFGSMLGIML MSQILTGFFL TFYYTAGEAF 
SSVQYIMFEV NLGWLLRIMH SNGASMFFLF IYLHIFKGLI YGSYRLIGVW 
LSGIFIYFLL MGIAFTGYVL IWGQMSYWAA VVITSLMTSV PYLGKYLVWW 
IWGSFSVCEN TLKFFYSVHF ILPWSLMVLV VFHLFFLHFT G<font color=red>SSS</font
+>LYCHG
[download]

In the above sequence the search patter is 'SSS' if they their are 4 'S' continousely then it should be colored as SSSS In case if the search patter is found between two gaps of the sequences like as follows the it should be colored as follows MAIFNSVFSS SSALKM i tryed it by as following codes

My code is
@y=q{MAIFNSLVFLPASFTLSYMWNFGSMLGIMLMSQILTGFFLTFYYTAGEAFSSVQYIMFEVNLGWL
+LRIMHSNGASMFFLFIYLHIFKGLIYGSYRLIGVWLSGIFIYFLLMGIAFTGYVLIWGQMSYWAAVVIT
+SLMTSVPYLGKYLVWWGSFSVCENTLKFFYSVHFILPWSLMVLVVFHLFFLHFTGSSSSLYCHGDYDKI
+HFFPSFWLKDGFDIFFYFFLILFSLYFSFDLSDPMIFVESDSMAS};

while($j<$n-$m)
    {
    if($lastch==$y[$j+$m-1] && $firstch == $y[$j]){
                                $data="";$pat="";
                for($i=$m-1;$i>=0;$i--){
                       $data=$y[$j+$i].$data;
                        $pat=$x[$i].$pat;
                       
                    }

                    if($data eq $pat){
                    @start=($j);
                    @end=$j+$m;

print "<b><font color=brown  face=britanic,helvetica,sans-serif,times,
+gill,courier size=4>Match Position : ",$j+1; #print "\n$entry\n$title
+\n$acc \n SEQUENCES=>\n@y\n\n";    
                    print " - ", $j +$m,"</b></font>";


print "<font color=blue  size=4 face=\"courier\"><b>";$ss=0;
                for(my $j=0;$j<=$#start;$j++)
                {
                    for(my $i=$ss;$i<=$#y;$i++)
                    {
                        if($start[$j] == -1)
                        {
                        next;
                        }
                        if($i % 10 == 0)
                        { print " ";}
                        if($i % 50 == 0)
                        {print "<br>";print OUTFILE"\n";}

                        if($start[$j] != $i && $i<$start[$j])
                        {
                            print "$y[$i]";
                            print OUTFILE "$y[$i]";    
                        }
                        if($start[$j] == $i)
                        {
                        line:    $k=$i;
                            do
                            {
                                print "</b></font><font color=red  siz
+e=4 face=\"courier\"><b><blink>";
                                if($k % 10 == 0 && $k != $start[$j])
                                { 
                                print " ";
                                print OUTFILE " ";
                                }
                                if($k % 50 == 0 && $k != $start[$j])
                                {        
                                    print "<br>";print OUTFILE "\n";
                                }
                                print "$y[$k]</b></blink></font><font 
+color=blue size=4 face=\"courier\"><b>";
                                print OUTFILE "$y[$k]";
                                $k++;
                            }until($end[$j] == $k || $end[$j+1] == $k 
+);$ss=$k;
                            if($k-1 == $start[$j+1])
                            {
                                $i=($start[$j+1])+1;
                                $j=$j+1;goto line;
                            }
                            elsif($k-1>=$start[$j+1] && $j <$#start) 
                            {
                                $i=$k;
                                $j=$j+1;goto line;
                            }
                            else
                            {last;}
                        }
                    }
                }
                for(my $i=$k;$i<$#y;$i++)
                {
                    if($i % 10 == 0)
                    { print " ";
                    print OUTFILE " ";}
                    if($i % 50 == 0 )
                    {print "<br>";print OUTFILE "\n";}
                    print "</b></font><font color=blue size=4 face=\"c
+ourier\"><b>$y[$i]";
                    print OUTFILE "$y[$i]";
                }
                print "</b></font><br> <hr color=navy>";
[download]

can i able to reduce this code so, Please, give me any suggession on it, because it take more time to execute this program as i colored the pattern by using arrays, if their is any way to reduce the code so, i am eager to know the answer, form you monk, please can any body give me suggession so for it. by sanku.

---

---

Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!

Titles consisting of a single word are discouraged, and in most cases are disallowed outright.

Read Where should I post X? if you're not absolutely sure you're posting in the right place.

Please read these before you post! —

• How do I compose an effective node title?
• How do I post a question effectively?
• Markup in the Monastery

Posts may use any of the Perl Monks Approved HTML tags:

a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr

You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)

	For:		Use:
	&		&
	<		&lt;
	>		&gt;
	[		&#91;
	]		&#93;

Link using PerlMonks shortcuts! What shortcuts can I use for linking?

See Writeup Formatting Tips and other pages linked from there for more info.