I have two files. A 'sequence' file, which looks like this.
and a set of correponding 'co-ordinate' files. The name of the co-ordinate file that corresponds to a particular sequence in the sequence file is highlighted by '>' a line above the actual sequence. Each of these files is made up of entries. Each entry is numbered. Some co-ordinate files start with entry number 1 but not all. The one below (the co-ordinate file named 'ONE'), for example, starts with an entry numbered 12.
12 14.620 35.834 -16.759 1.00 11.04
13 15.922 36.983 -19.044 1.00 11.22
14 14.326 37.148 -21.240 1.00 11.40
15 11.528 38.248 -23.343 1.00 12.44
This corresponds to the first sequence in the sequence file
I need to assign each letter in that sequence with the corresponding entry in the corresponding co-ordinate file. You read the sequence file from left to right with each letter needing to be mapped to an numbered entry in the co-ordinate file.
So .. for the first letter 'R' in the sequence, it has to be mapped to entry number 13 in the co-ordinate file - the second letter in the sequence 'R', it corresponds to the second entry in the co-ordinate file, which in this case is entry 13.
The resulting text file should look like this
I'm not sure what the best way of going about writing a perl script for this is. Any advice/hints much appreciated. The real examples are obviously far larger than the test case presented here