MDL test case: Chromo shadow family, Z=5.0

Partitioning defined by patterns:

DmHP1_A DvHP1_A HuHP1_A MoMOD1_A MoMOD2_A PcHET1_A PcHET2_A
DmHP1_B DvHP1_B HuHP1_B MoMOD1_B MoMOD2_B PcHET1_B PcHET2_B
DmPc MoMOD3 CeYO82 SmPAJ26 Pf0131C CeT9A58 DmSuv39 HuMG44 CfTENV MoCHD1_A CeYK9A3 Ce29H12
SpSWI6_A FoSKPY ScYEZ4_A MoCHD1_B ScYEZ4_B MgGRH MgMAGGY SpSWI6_B

Does this correspond to the tree?

The first set is the set of "classical chromo domains linked to chromo shadow domains" (except the SpSWI6_A sequence) in Aasland's and Stewart's tree. The second is the set of "chromo shadow domains" in Aasland and Stewart's tree (except for the SpSWI6_B). Note that these two are identical to the ones found when running Pratt for all possible K-values (results). The third and fourth do not correspond to any clear subtrees in the tree (and are different from the sets found by the standard algorithm).

Patterns covering the set:

DmHP1_A DvHP1_A HuHP1_A MoMOD1_A MoMOD2_A PcHET1_A PcHET2_A

37.31793 130.61278 
E-x(0,1)-E-E-[FY]-x-V-E-K-[IV]-[IL]-D-[KR]-R-x(3,4)-G-x-V-x-Y-x-L-K-W-K-G-[FY]-x-[ED]-x-[HED]-N-T-W-E-P-x(2)-N-x-[ED]-C-x-[ED]-L-[IL]

DmHP1_B DvHP1_B HuHP1_B MoMOD1_B MoMOD2_B PcHET1_B PcHET2_B

24.70409 86.46432 
F-x(1,2)-R-x-[LV]-x(2)-E-x(0,1)-I-[IL]-G-x-[TS]-[KD]-x(2)-G-x-L-x-F-L-x(2)-[FW]-[KE]-x(2)-[ED]-x-A-x(2)-V-x-[AS]-x(2)-A-x(4)-P-x(2)-[IV]-I

DmPc MoMOD3 CeYO82 SmPAJ26 Pf0131C CeT9A58 DmSuv39 HuMG44 CfTENV MoCHD1_A CeYK9A3 Ce29H12
```
16.36966 28.06227 
W-x-G-[YW]-x(5)-[TS]-W-E-x(3)-[TSDN]-[ILV]
```
SpSWI6_A FoSKPY ScYEZ4_A MoCHD1_B ScYEZ4_B MgGRH MgMAGGY SpSWI6_B
```
3.12754 8.34010 
W-E
```

Page compiled by: Inge Jonassen.

Chromo Test Set MDL.