i have an output like this having 2 sets of alignments.. in this, i want the first 4 lines of the 1st set of alignment and the first 4 lines of the 2nd set of alignment in an array. The same way, The alignment part of the 1st and the 2nd set in an array. The two sets of alignments are seperated by a '>' symbol. 
>1gmz_B mol:protein length:122  PHOSPHOLIPASE A2
          Length = 122

 Score =  103 bits (233), Expect = 9e-23
 Identities = 56/124 (45%), Positives = 67/124 (54%), Gaps = 12/124 (9
+%)

Query: 2   LWQFNGMIKCKIPSSEPLLDFNNYGCYCGLGGSGTPVDDLDRCCQTHDNCYKQAKKLDS
+C 61
           LWQF  MI  K     P   +  YGCYCG+GG G P D  DRCC  HD CY    KL S
+C
Sbjct: 2   LWQFGKMI-LKETGKLPFPYYVTYGCYCGVGGRGGPKDATDRCCFVHDCCY---GKLTS
+C 57

Query: 62  KVLVDNPYTNNYSYSCSNNEITCSSENNACEAFICNCDRNAAICFSK--VPYNKEHKNL
+D 119
           K     P T+ YSYS  +  I C  EN+ C   IC CD+ AA+CF +    YNK++ + 
+ 
Sbjct: 58  K-----PKTDRYSYSRKDGTIVC-GENDPCRKEICECDKAAAVCFRENLDTYNKKYMSY
+L 111

Query: 120 KKNC 123
           K  C
Sbjct: 112 KSLC 115

>1b4w_A mol:protein length:122  PROTEIN (PHOSPHOLIPASE A2)
          Length = 122

 Score = 95.7 bits (215), Expect = 2e-20
 Identities = 46/105 (43%), Positives = 61/105 (58%), Gaps = 10/105 (9
+%)

Query: 2   LWQFNGMIKCKIPSSEPLLDFNNYGCYCGLGGSGTPVDDLDRCCQTHDNCYKQAKKLDS
+C 61
           L QF  MIK K+   EP++ +  YGCYCG GG G P D  DRCC  HD CY   +K+  
+C
Sbjct: 2   LLQFRKMIK-KMTGKEPVVSYAFYGCYCGSGGRGKPKDATDRCCFVHDCCY---EKVTG
+C 57

Query: 62  KVLVDNPYTNNYSYSCSNNEITCSSENNACEAFICNCDRNAAICF 106
                +P  ++Y+YS  N  I C  + + C+  +C CD+ AAICF
Sbjct: 58  -----DPKWDDYTYSWKNGTIVCGGD-DPCKKEVCECDKAAAICF 96

[download]
i have now done this : 
#!/usr/bin/perl
open FILE, "/home/guest/align.txt";
my @arr123;
local $/ = '';
@arr123 = <FILE>;    #output file.
print "<pre>";
#print @arr123;
$array=join('',@arr123);
@arr=split(/\n/,$array);
foreach $a(@arr){
    if($a=~/>/ || $a=~ /Length/ || $a=~ /Score/ || $a=~ /Identities/){
+push (@header,$a);}    #header information.
    if($a=~/^Query/||$a=~/           /||$a=~/^Sbjct/){push(@lin,$a);} 
+       
}
foreach(@header){print $_,"\n";}
foreach(@lin){print $_,"\n";}

[download]
i m sure there are better ways to do it.....and also tell me which is the best website to learn perl?

In reply to how to split by heidi

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