Result File Format

1. At the beginning of the file:

>name of contact
Your Name
>email
Your Email Address
>program name
MyMotif

2. And then for each of the data sets:

>data set
dm01
>instances
0,-102,ATTCGGT
0,-57,GTTGGGTTT
2,-250,ACCGAAT
...
>data set
dm02
...

Each motif instance is given as a triple "seq#, position, substring", one per line and comma-separated.

• "seq#" is the input sequence number in which the instance is found.
• "position" is the position of the first nucleotide in "substring", measured from the 3' end of the input string. For example, in the first instance given above, the A occurs at position -102, where the last character of the input sequence is numbered -1.
• "substring" is given on the strand of the input string, independent of the strand your program predicts to contain the instance. That is, "substring" must be a substring of our supplied sequence "seq#" beginning at "position".