X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2Ftestdata%2Fexonerateoutput.gff;h=d3b5f9bf2a6cbfecd3a81013b4566e8fd9621e95;hb=08f7a2be3977da8704dd4751de7245bcc6fc41c3;hp=3ea68dca3309abb972a529b5ff4cc06f16969eda;hpb=738aefc46064dd9f97d152fda385af9db4068545;p=jalview.git

diff --git a/examples/testdata/exonerateoutput.gff b/examples/testdata/exonerateoutput.gff
index 3ea68dc..d3b5f9b 100644
--- a/examples/testdata/exonerateoutput.gff
+++ b/examples/testdata/exonerateoutput.gff
@@ -1,3 +1,7 @@
+# (exonerate delimits GFF with [START|END] OF GFF DUMP)
+# --- START OF GFF DUMP ---
+#
+#
 ##gff-version 2
 ##source-version exonerate:protein2genome:local 2.2.0
 ##date 2015-01-16
@@ -9,5 +13,8 @@
 contig_1146	exonerate:protein2genome:local	gene	8534	11269	3652	-	.	gene_id 0 ; sequence DDB_G0269124 ; gene_orientation .
 contig_1146	exonerate:protein2genome:local	cds	8534	11269	.	-	.	
 contig_1146	exonerate:protein2genome:local	exon	8534	11269	.	-	.	insertions 3 ; deletions 6
+#TODO need to understand why GFF features is from 11269 but Align is from 11270
 contig_1146	exonerate:protein2genome:local	similarity	8534	11269	3652	-	.	alignment_id 0 ; Query DDB_G0269124 ; Align 11270 143 120 ; Align 11150 187 282 ; Align 10865 281 888 ; Align 9977 578 1068 ; Align 8909 935 375
+# and a made-up alignment to a sequence in exonerateseqs.fa
+contig_1146	exonerate:protein2genome:local	similarity	8534	11269	3652	-	.	alignment_id 0 ; Query DDB_G0280897 ; Align 11270 143 120 
 # --- END OF GFF DUMP ---