Thursday, December 22, 2005

file format of output from Match program of Transfac

Example:

Inspecting sequence ID ENSMUST00000070533

V$SP1_01 | 1470 (-) | 0.962 | 0.949 | tccCAGCCcc
V$SP1_01 | 2262 (+) | 1.000 | 0.967 | ggGGCGGgct

The position of first hit, 1470, is in term of the original sequence, instead of reverse complement sequence, and tccCAGCCcc is a segment of original sequence. And, in term of the original sequence, the end position of binding sequence is 1479.

1470 1479
| |
tccCAGCCcc

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