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Last change
on this file was
5783,
checked in by westram, 15 years ago
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Property svn:eol-style set to
native
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Property svn:keywords set to
Author Date Id Revision
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File size:
1.2 KB
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| 1 | # ----------------------------------------------------------------------------------------- |
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| 2 | # All expressions in mod_fields*.sellst appear in 'MODIFY DATABASE FIELD of listed species' |
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| 3 | # ----------------------------------------------------------------------------------------- |
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| 4 | replace all 'u' by 't', :u=t |
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| 5 | remove all '"', :"= |
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| 6 | copy (full_name) to this field, :*=*(full_name) |
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| 7 | append (full_name) to this field, :*=*1 *(full_name) |
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| 8 | calculate sequence checksum, seqcheck#|sequence|"ARB_";checksum(exclude=.-n;toupper) |
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| 9 | #count ambigus letters, ambig#|sequence|mid(40,-100)|len("-ACGTU") |
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| 10 | count ambiguities (nry. ...) (filter: ECOLI), ambig#|sequence|filter(SAI=ECOLI,exclude=.-)|mid(10,-10)|len("-ACGTU") |
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| 11 | truncate seq. ranges outside ecoli range, |filter(SAI=ECOLI,exclude=.) |
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| 12 | increase G+C content in helical regions by 5%, ali_*/data#|change(SAI=HELIX,exclude=.-,change=5,to=GC) |
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| 13 | store taxonomy, ARB_treetax#|taxonomy(1) |
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| 14 | store full taxonomy, ARB_treetax#|taxonomy(999) |
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| 15 | |
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