cryptogenomicon
commented
1 year ago You may have done something that changed the globins4.sto file. Make sure it's still the original file, which is an alignment of four globin sequences, in Stockholm format. It looks like this:
# STOCKHOLM 1.0
HBB_HUMAN ........VHLTPEEKSAVTALWGKV....NVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVL
HBA_HUMAN .........VLSPADKTNVKAAWGKVGA..HAGEYGAEALERMFLSFPTTKTYFPHF.DLS.....HGSAQVKGHGKKVA
MYG_PHYCA .........VLSEGEWQLVLHVWAKVEA..DVAGHGQDILIRLFKSHPETLEKFDRFKHLKTEAEMKASEDLKKHGVTVL
GLB5_PETMA PIVDTGSVAPLSAAEKTKIRSAWAPVYS..TYETSGVDILVKFFTSTPAAQEFFPKFKGLTTADQLKKSADVRWHAERII
HBB_HUMAN GAFSDGLAHL...D..NLKGTFATLSELHCDKL..HVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANAL
HBA_HUMAN DALTNAVAHV...D..DMPNALSALSDLHAHKL..RVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVL
MYG_PHYCA TALGAILKK....K.GHHEAELKPLAQSHATKH..KIPIKYLEFISEAIIHVLHSRHPGDFGADAQGAMNKALELFRKDI
GLB5_PETMA NAVNDAVASM..DDTEKMSMKLRDLSGKHAKSF..QVDPQYFKVLAAVIADTVAAG.........DAGFEKLMSMICILL
HBB_HUMAN AHKYH......
HBA_HUMAN TSKYR......
MYG_PHYCA AAKYKELGYQG
GLB5_PETMA RSAY.......
//
When I tried to follow the userguide to run the tutorial, it said Alignment input open failed. couldn't guess alignment input format - doesn't even look like selex while reading file globins4.sto after I input hmmbuild globins4.hmm globins4.sto. How I can solve this problem? Thank you very much!