{"action":"opened","issue":{"url":"https://api.github.com/repos/mikessh/migmap/issues/23","labels_url":"https://api.github.com/repos/mikessh/migmap/issues/23/labels{/name}","comments_url":"https://api.github.com/repos/mikessh/migmap/issues/23/comments","events_url":"https://api.github.com/repos/mikessh/migmap/issues/23/events","html_url":"https://github.com/mikessh/migmap/issues/23","id":114365614,"number":23,"title":"Mutation nomenclature","user":{"login":"Tatster","id":13095759,"avatar_url":"https://avatars.githubusercontent.com/u/13095759?v=3","gravatar_id":"","url":"https://api.github.com/users/Tatster","html_url":"https://github.com/Tatster","followers_url":"https://api.github.com/users/Tatster/followers","following_url":"https://api.github.com/users/Tatster/following{/other_user}","gists_url":"https://api.github.com/users/Tatster/gists{/gist_id}","starred_url":"https://api.github.com/users/Tatster/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Tatster/subscriptions","organizations_url":"https://api.github.com/users/Tatster/orgs","repos_url":"https://api.github.com/users/Tatster/repos","events_url":"https://api.github.com/users/Tatster/events{/privacy}","received_events_url":"https://api.github.com/users/Tatster/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":0,"created_at":"2015-10-30T22:21:12Z","updated_at":"2015-10-30T22:21:12Z","closed_at":null,"body":"Hello,\r\nI'm having trouble relating the mutation description back to the sequence.\r\n*eg* S119:A>C. I take this to mean the 119th nucleotide (after concatenating the domains) has mutated from A to C. Does the **S** stand for **S**ubstitution? I also see **I** (for **I**nsertion perhaps?).\r\nWhen I check these against the sequence the residues in the positions indicated don't always match up with what the mutation should have effected. Is there an explanation for this - some indicator somewhere implying the starting nucleotide index should be incremented somehow. Sometimes I can see that all the numbers are out 1 or 3 residues - but the rule isn't consistent across all my sequences.\r\nThanks in advance for any advice."}}