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<P>This email is from the person who has written the program Showalign ...<BR></P>
<TD>The uppercase consensus symbols is meant to indicate that the consensus is strong and lowercase indicates that it is weak. In practice, I don't really like this feature and genarally turn it off.<BR><BR>The cutoff for setting the case of the consensus is set by the<BR>qualifier '-setcase'.<BR>If the score of the matches is above this value, then the symbol is in<BR>uppercase, iot the score is below the -setcase value then the symbol is in lowercase.<BR><BR>To put all of the consensus symbols into uppercase or lowercase, make<BR>-setcase very low (-100000 ?) or very large (100000 ?)<BR><BR>Regards,<BR>Gary</TD></TR></TBODY></TABLE>
<P><B><I>selvi subramanian <email@example.com></I></B> wrote:
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<P>well i believe the conservative replacements are denoted by x and the non <BR>conservative as X, govind!!!<BR><BR>S:)<BR></P>
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