Supplementary Figures for
D. Metzler
(2002) Statistical alignment based on fragment insertion and
deletion models
(submitted to Bioinformatics)
Software used in Sections 3.1 & 4.3:
MCMCSALUT
Section 3.1 (Example: HVR-1 from human and orangutan)
Figure A:
The database alignment of a human (top sequence) and an orangutan
HVR-1 sequence (bottom sequence) and the percentage of 1000 sampled
alignments (with almost flat prior) that
differ from it in each position.
Section 4.3 (Robustness of the sampling algorithm)
Figure B:
30 sequence pairs of length
~1000 were generated according to the FID (left) and the
GID (right) model with s=0.5, lambda=0.1
and gamma=3. For each pair we sampled 50
alignment-mutation-parameters-combinations according to their
posterior probability in the FID model. The point clouds show the
overlay of the (lambda,gamma)-component of the sampling results.
Figure C:
The point clouds show the overlay of the (lambda,s)-component
of the sampling results of the experiment described in the caption
of Figure C.
Dirk Metzler
Last modified: Mon Oct 7 19:12:48 MSZ 2002