Biology WorkBench 3.2

Version 3.2

DRAWGRAM
Draw Rooted Phylogenetic Tree from Alignment

Selected Sequence(s)

mismatch repair protein [Rattus norvegicus],
MutL homolog 1 protein [Mus musculus],
hMlh1 proein,
Mlh1 gene product [Drosophila melanogaster],
Mlh1p Saccharomyces cerevisiae,
hypothetical protein T28A8.7 - Caenorhabditis elegans

Sequence Fasta label (*) Workbench label (**)
1 gi_13591989_ref_NP_112315.1_ mismatch repair protein [Rattus norvegicus],

2 gi_7595954_gb_AAF64514.1_AF2 MutL homolog 1 protein [Mus musculus],

3 gi_463989_gb_AAC50285.1__hML hMlh1 proein,

4 gi_7304079_gb_AAF59117.1__Ml Mlh1 gene product [Drosophila melanogaster],

5 gi_460627_gb_AAA16835.1__Mlh Mlh1p Saccharomyces cerevisiae,

6 gi_7508639_pir__T25389_hypot hypothetical protein T28A8.7 - Caenorhabditis elegans

Sequence	Fasta label (*)	Workbench label (**)
1	gi_13591989_ref_NP_112315.1_	mismatch repair protein [Rattus norvegicus],
2	gi_7595954_gb_AAF64514.1_AF2	MutL homolog 1 protein [Mus musculus],
3	gi_463989_gb_AAC50285.1__hML	hMlh1 proein,
4	gi_7304079_gb_AAF59117.1__Ml	Mlh1 gene product [Drosophila melanogaster],
5	gi_460627_gb_AAA16835.1__Mlh	Mlh1p Saccharomyces cerevisiae,
6	gi_7508639_pir__T25389_hypot	hypothetical protein T28A8.7 - Caenorhabditis elegans

(*) 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

(
gi_13591989_ref_NP_112315.1_:0.04691,
gi_7595954_gb_AAF64514.1_AF2:0.03631,
(
gi_463989_gb_AAC50285.1__hML:0.05530,
(
gi_7304079_gb_AAF59117.1__Ml:0.23744,
(
gi_460627_gb_AAA16835.1__Mlh:0.32903,
gi_7508639_pir__T25389_hypot:0.37670)
:0.04784)
:0.19079)
:0.02362);

Clustal W Diagnostic Output



 CLUSTAL W (1.81) Multiple Sequence Alignments



Sequence type explicitly set to Protein
Sequence format is Pearson
Sequence 1: gi_13591989_ref_NP_112315.1_      814 aa
Sequence 2: gi_7595954_gb_AAF64514.1_AF2      814 aa
Sequence 3: gi_463989_gb_AAC50285.1__hML      814 aa
Sequence 4: gi_7304079_gb_AAF59117.1__Ml      814 aa
Sequence 5: gi_460627_gb_AAA16835.1__Mlh      814 aa
Sequence 6: gi_7508639_pir__T25389_hypot      814 aa
Phylogenetic tree file created:   [../tmp-dir/21802.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.