Greetings, I'm working on a homework and I couldn't figure out the part where I'm supposed to print all the genes in a text file. the genes start with ATG and end with TGA or TAG or TAA strings.. the genes are also supposed to come after TATAAT string.. I've searched the file I'm supposed to read and found two genes but the code I've written doesn't print them out. Also, between the TATAAT string and the ATG start codon, at least one of A,C,G,T strings are present, usage of acgtACGT+ is for that.My code is: 
$filename = "input.txt";
open (IN, $filename) or die "Can't open file $filename : $! ";

$text = "";
while($line = <IN>)
{
    $text .= $line;
}

while($text =~ m/(TATAAT[ACGT]+(ATG[ACGT]+(TGA|TAG|TAA)))/g) #we check
+ for DNA Strands along with TATA box #promoters..(TATAAT string) 
{
    print "$2\n";  
}

[download]
Any info would be helpful, thanks.

In reply to search and print in perl by hellworld

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