If you split the line like this:
@seqs=split(/gi|37182815|gb|AY358849.1|/,$seq);
It means the fields are separated by 'gi' or '37182815' or 'gb' or 'AY358849.1'. I don't think this is what you are looking for...
From the previous post, it seems the file is separated by tabs, so 'gi|37182815|gb|AY358849.1|' is the first field.
Then, to get the fields all you need to do is:
@seqs=split(/\t/,$seq);
aditi gupta wrote:
hi to all,
i have a file $seq, in following format:
gi|37182815|gb|AY358849.1| gi|2353725|gb|AF015490.1|AF015490 100.00 16 0 0 544 559 320 335 4.2 32.21 gi|37182815|gb|AY358849.1| gi|1335960|gb|U55203.1|BTU55203 100.00 16 0 0 544 559 380 395 4.2 32.21 gi|37182815|gb|AY358849.1| gi|1335958|gb|U55202.1|BTU55202 100.00 16 0 0 544 559 443 458 4.2 32.21
i split it into arrays using:
@seqs=split(/gi|37182815|gb|AY358849.1|/,$seq);
but when i printed the array,it was:
|||| |2353725||AF015490.1|AF015490 100.00 16 0 0 544 559 320 335 4.2 32.21 |||| |1335960||U55203.1|BTU55203 100.00 16 0 0 544 559 380 395 4.2 32.21 |||| |1335958||U55202.1|BTU55202 100.00 16 0 0 544 559 443 458 4.2 32.21
i.e. the second occurance of gi is also being deleted. Also ' | ' separators present in /gi|37182815|gb|AY358849.1|/ is still present.can these be removed?and can the second gi,since it is an accession no. and will be required later, be from deletion?
please help!!
-aditi
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