Merge branch 'alpha/JAL-3362_Jalview_212_alpha' into merge-212

[jalview.git] / test / jalview / io / HMMAlignmentTest.sto

diff --git a/test/jalview/io/HMMAlignmentTest.sto b/test/jalview/io/HMMAlignmentTest.sto
new file mode 100644 (file)
index 0000000..f0f1f4a
--- /dev/null
+++ b/test/jalview/io/HMMAlignmentTest.sto
@@ -0,0 +1,16 @@
+# STOCKHOLM 1.0
+#=GS Q7XA98_TRIPR/1-152   DR UNIPROT ; Q7XA98 
+#=GS FER1_PEA/1-149       DR UNIPROT ; P09911 
+#=GS Q93XJ9_SOLTU/1-144   DR UNIPROT ; Q93XJ9 
+#=GS FER_CAPAN/1-144      DR UNIPROT ; Q9ZTS2 
+#=GS FER1_SOLLC/1-144     DR UNIPROT ; Q43517 
+#=GS FER_CAPAA/1-97       DR UNIPROT ; P83527 
+FER_CAPAA/1-97             ------------------------------------------------------------------------ASYKVKLITPDGPIEFDCPDDVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDGNFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
+FER_CAPAN/1-144            MA------SVSATMISTSFMPRKPAVTSL-KPIPNVGE--ALFGLKS-A--NGGKVTCMASYKVKLITPDGPIEFDCPDNVYILDQAEEAGHDLPYSCRAGSCSSCAGKIAGGAVDQTDGNFLDDDQLEEGWVLTCVAYPQSDVTIETHKEAELVG-
+FER1_SOLLC/1-144           -------------MA------SISGTMISTSFLPRKPAVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMASYKVKLITPEGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGSVDQSDGNFLDEDQEAAGFVLTCVAYPKGDVTIETHKEEELTA-
+Q93XJ9_SOLTU/1-144         --------MA------SISGTMISTSFLPRKPVVTSL-KAISNVGE--ALFGLKS-G--RNGRITCMASYKVKLITPDGPIEFECPDDVYILDQAEEEGHDLPYSCRAGSCSSCAGKVTAGTVDQSDGKFLDDDQEAAGFVLTCVAYPKCDVTIETHKEEELTA-
+FER1_PEA/1-149             -------------MATT---PALYGTAVSTSFLRTQPMPMSV-TTTKAFSN--GFLGLKT-SLKRGDLAVAMASYKVKLVTPDGTQEFECPSDVYILDHAEEVGIDLPYSCRAGSCSSCAGKVVGGEVDQSDGSFLDDEQIEAGFVLTCVAYPTSDVVIETHKEEDLTA-
+Q7XA98_TRIPR/1-152         -------------MATT---PALYGTAVSTSFMRRQPVPMSV-ATTTTTKAFPSGFGLKSVSTKRGDLAVAMATYKVKLITPEGPQEFDCPDDVYILDHAEEVGIELPYSCRAGSCSSCAGKVVNGNVNQEDGSFLDDEQIEGGWVLTCVAFPTSDVTIETHKEEELTA-
+#=GC SS_cons                                                                              EEE    EEEEEEEE    HHHHH          e    e  e EE     EE          HHHH E   e  EE   EEEEE         
+#=GC Iron_Sulphur_Contacts -------------------------------------------------------------------------------------------------e----e--e-----------------------------e---------------------
+//