On 13 May 2005 21:59:58 +0100, [EMAIL PROTECTED] <[EMAIL PROTECTED]> wrote:
> The file:
>
> Scer ACTAACAAGCAAAATGTTTTGTTTCTCCTTTT-AAAATAGTACTGCTGTTTCTCAAGCTG
> Spar actaacaagcaaaatgttttgtttctcctttt-aaaatagtactgctgtttctcaagctg
> Smik actaacaagcaaaatgtttcttttctcttttttgaaatagtactgctgcttctcaagctg
> Sbay actaacaagcaaaaactttttgttttatt----gaaatagtactgctgtctctcaagctg
> **** * ************** ** ******** *** ***** ******* *
>
> Scer GGGGTGCTCACCAATTTATCCCAATTGGTTTCGGTATCAAGAAGTTGCAAATTAACTGTG
> Spar GGGGTGCTCACCAATTTATCCCAATTGGTTTCGGTATCAAGAAGTTGCAAATTAACTGTG
> Smik GGGGTGCTCACCAATTCATCCCAATTGGTTTCGGTATCAAGAAGTTGCAAATTAACTGTG
> Sbay GGGGTGCTCACCAATTCATCCCAATTGGTTTCGGTATCAAGAAATTGCAAATTAACTGTG
> * ********** ********* **** ********* * ** ***** ** ****
>
> Scer ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAAaaggctttttt-ataa
> Spar ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAAaaagctttttttataa
> Smik ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAAgaagctttttctataa
> Sbay ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAAgaagctttttctataa
> ******************************************** * ******* ****
>
> Scer actttttataatt----aacattaa-------agcaaaaacaacattgtaaagattaaca
> Spar actttttataata----aacatcaa-------agcaaaaacaacattgtaaagattaaca
> Smik actttttataatt----aacatcgacaaaaacgacaacaacaacattgtaaagattaaca
> Sbay actttttataacttagcaacaacaacaacaacaacatcaacaacattgtaaagattaaca
> *********** **** * ** **********************
How about some RE action.
>>> import re
>>> pat = re.compile('^(S[a-z]{3}\s*[A-Z]+).*$')
>>> fr = file('dna','r')
>>> for line in fr:
... m = pat.match(line)
... if m:
... print m.group(1)
...
Scer ACTAACAAGCAAAATGTTTTGTTTCTCCTTTT
Scer GGGGTGCTCACCAATTTATCCCAATTGGTTTCGGTATCAAGAAGTTGCAAATTAACTGTG
Spar GGGGTGCTCACCAATTTATCCCAATTGGTTTCGGTATCAAGAAGTTGCAAATTAACTGTG
Smik GGGGTGCTCACCAATTCATCCCAATTGGTTTCGGTATCAAGAAGTTGCAAATTAACTGTG
Sbay GGGGTGCTCACCAATTCATCCCAATTGGTTTCGGTATCAAGAAATTGCAAATTAACTGTG
Scer ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAA
Spar ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAA
Smik ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAA
Sbay ACCACGTCCAATCTACCGATATTGCTGCTATGCAAAAATTATAA
--
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