2ff1746a3ade86b97a62c3f243d1130ca863005b
galt
  Tue Oct 9 16:18:25 2018 -0700
Added warning text about BLAT ALL Genomes results with very few hits.

diff --git src/hg/hgBlat/hgBlat.c src/hg/hgBlat/hgBlat.c
index 8b7872f..d3c22e0 100644
--- src/hg/hgBlat/hgBlat.c
+++ src/hg/hgBlat/hgBlat.c
@@ -1588,30 +1588,33 @@
 printf("%s", 
 "<P>Only DNA sequences of 25,000 or fewer bases and protein or translated \n"
 "sequence of 10000 or fewer letters will be processed.  Up to 25 sequences\n"
 "can be submitted at the same time. The total limit for multiple sequence\n"
 "submissions is 50,000 bases or 25,000 letters.\n</P>\n");
 
 printf("%s", 
 "<P>The <b>Search ALL</b> checkbox above the Genome drop-down list allows you to search the\n"
 "genomes of the default assemblies for all of our organisms.\n"
 "This shows you which organisms have the highest homology with your query sequence.\n"
 "The results are ordered so that the organism whose best alignment has the most hits is at the top,\n"
 "and shows the best region found.\n"
 "It makes quick approximate alignments based only on the raw hits,\n"
 "which are a perfectly matching short sub-sequence of a fixed size: \n"
 "11 for DNA and 4 for protein. \n"
+"The entire alignment, including mismatches and gaps, must score 20 \n"
+"or higher in order to appear in the BLAT output.\n"
+"Having only 2 hits is quite low, and will often yield no BLAT results.\n"
 "Click the link to see the full BLAT output for that organism.\n</P>\n");
 
 if (hgPcrOk(db))
     printf("<P>For locating PCR primers, use <A HREF=\"../cgi-bin/hgPcr?db=%s\">In-Silico PCR</A>"
            " for best results instead of BLAT.</P>", db);
 puts("</TD></TR></TABLE>\n");
 
 
 
 printf("</FORM>\n");
 
 webNewSection("About BLAT");
 printf( 
 "<P>BLAT on DNA is designed to\n"
 "quickly find sequences of 95%% and greater similarity of length 25 bases or\n"