X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=sequence.cpp;fp=sequence.cpp;h=ddc7d4c5a410ca99a415ee1e15d7c60b2199060f;hp=d1cf7299a46c522255eb725dccb058673f6b1c78;hb=2cfb747aa8f63bde9c1114001e6d2e81ccd26178;hpb=4a760c2d164aa955dee7d3d38da323822763d906

diff --git a/sequence.cpp b/sequence.cpp
index d1cf729..ddc7d4c 100644
--- a/sequence.cpp
+++ b/sequence.cpp
@@ -683,12 +683,12 @@ int Sequence::filterToPos(int start){
     
     if (start > aligned.length()) { start = aligned.length(); m->mothurOut("[ERROR]: start to large.\n"); }
     
-	for(int j = 0; j < start-1; j++) {
+	for(int j = 0; j < start; j++) {
 		aligned[j] = '.';
 	}
 	
     //things like ......----------AT become ................AT
-    for(int j = start-1; j < aligned.length(); j++) {
+    for(int j = start; j < aligned.length(); j++) {
         if (isalpha(aligned[j])) { break; }
         else { aligned[j] = '.'; }
     }