Biology WorkBench 3.2

Version 3.2

DRAWGRAM
Draw Rooted Phylogenetic Tree from Alignment

Selected Sequence(s)

Mus musculus MutL homolog 1 protein (MLH1) mRNA, complete cds.,
Rattus norvegicus mismatch repair protein (MLH1) mRNA, complete,
DNA MISMATCH REPAIR PROTEIN MLH1 (MUTL PROTEIN HOMOLOG 1) [Homo sapiens (Human)],
Drosophila melanogaster genomic scaffold 142000013386047 section 5,
Caenorhabditis elegans cosmid T28A8, complete sequence_,
S.cerevisiae genes RHO2, TOP2, MKT1, END2, PMS1 AND ORFs N2250,

Sequence Fasta label (*) Workbench label (**)
1 GENPEPT_7595954 Mus musculus MutL homolog 1 protein (MLH1) mRNA, complete cds.,

2 GENPEPT_1724118 Rattus norvegicus mismatch repair protein (MLH1) mRNA, complete,

3 MLH1_HUMAN DNA MISMATCH REPAIR PROTEIN MLH1 (MUTL PROTEIN HOMOLOG 1) [Homo sapiens (Human)],

4 GENPEPT_7304079 Drosophila melanogaster genomic scaffold 142000013386047 section 5,

5 GENPEPT_3880333 Caenorhabditis elegans cosmid T28A8, complete sequence_,

6 GENPEPT_887629 S.cerevisiae genes RHO2, TOP2, MKT1, END2, PMS1 AND ORFs N2250,

Sequence	Fasta label (*)	Workbench label (**)
1	GENPEPT_7595954	Mus musculus MutL homolog 1 protein (MLH1) mRNA, complete cds.,
2	GENPEPT_1724118	Rattus norvegicus mismatch repair protein (MLH1) mRNA, complete,
3	MLH1_HUMAN	DNA MISMATCH REPAIR PROTEIN MLH1 (MUTL PROTEIN HOMOLOG 1) [Homo sapiens (Human)],
4	GENPEPT_7304079	Drosophila melanogaster genomic scaffold 142000013386047 section 5,
5	GENPEPT_3880333	Caenorhabditis elegans cosmid T28A8, complete sequence_,
6	GENPEPT_887629	S.cerevisiae genes RHO2, TOP2, MKT1, END2, PMS1 AND ORFs N2250,

(*) Clustalw cuts off Fasta labels after the first space (e.g. ">abc def" becomes ">abc").

(**) The Workbench labels ONLY are meaningful if they were formed correctly, which means each label corresponds with the sequence IN THE SAME ORDER in the sequence alignment. This will not always be the case, so use this column carefully.

PHYLIP rooted tree -Phenogram

Download a PostScript version of the output

Raw Phylip format tree

(
(
GENPEPT_7595954:0.03682,
GENPEPT_1724118:0.04641)
:0.02331,
MLH1_HUMAN:0.05561,
(
GENPEPT_7304079:0.25166,
(
GENPEPT_3880333:0.36330,
GENPEPT_887629:0.38253)
:0.05967)
:0.17668);

Clustal W Diagnostic Output



 CLUSTAL W (1.81) Multiple Sequence Alignments



Sequence type explicitly set to Protein
Sequence format is Pearson
Sequence 1: GENPEPT_7595954      828 aa
Sequence 2: GENPEPT_1724118      828 aa
Sequence 3: MLH1_HUMAN           828 aa
Sequence 4: GENPEPT_7304079      828 aa
Sequence 5: GENPEPT_3880333      828 aa
Sequence 6: GENPEPT_887629       828 aa
Phylogenetic tree file created:   [../tmp-dir/24504.DRAWGRAM.ph]

Citation

Algorithm Citation:

Higgins, D.G., Bleasby, A.J. and Fuchs, R. (1992) CLUSTAL V: improved software for multiple sequence alignment. Computer Applications in the Biosciences (CABIOS), 8(2):189-191.

Thompson J.D., Higgins D.G., Gibson T.J. "CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice." Nucleic Acids Res. 22:4673-4680(1994).

Felsenstein, J. 1989. PHYLIP -- Phylogeny Inference Package (Version 3.2). Cladistics 5: 164-166.

Program Citation:

CLUSTAL W: Julie D. Thompson, Desmond G. Higgins and Toby J. Gibson, modified; any errors are due to the modifications.

PHYLIP: Felsenstein, J. 1993. PHYLIP (Phylogeny Inference Package) version 3.5c. Distributed by the author. Department of Genetics, University of Washington, Seattle.