Biology WorkBench 3.0

Version 3.0

CLUSTAL_W
Phylogenetic Analysis with Clustalw

Selected Sequence(s)

OS CICER ARIETINUM (CHICKPEA) (GARBANZO).,
OS ORYZA SATIVA (RICE).,
OS DAUCUS CAROTA (CARROT).,
OS PRUNUS DULCIS (ALMOND) (PRUNUS AMYGDALUS).,
OS BETA VULGARIS (SUGAR BEET).,
OS GOSSYPIUM HIRSUTUM (UPLAND COTTON).,
OS SPINACIA OLERACEA (SPINACH).,
OS LYCOPERSICON ESCULENTUM (TOMATO).,
OS NICOTIANA TABACUM (COMMON TOBACCO).,
lipid transport 2

Sequence	Fasta label (*)	Workbench label (**)
1	NLTP_CICAR	OS CICER ARIETINUM (CHICKPEA) (GARBANZO).,
2	NLT3_ORYSA	OS ORYZA SATIVA (RICE).,
3	NLTP_DAUCA	OS DAUCUS CAROTA (CARROT).,
4	NLT1_PRUDU	OS PRUNUS DULCIS (ALMOND) (PRUNUS AMYGDALUS).,
5	NLTP_BETVU	OS BETA VULGARIS (SUGAR BEET).,
6	NLT1_GOSHI	OS GOSSYPIUM HIRSUTUM (UPLAND COTTON).,
7	NLTP_SPIOL	OS SPINACIA OLERACEA (SPINACH).,
8	NLT1_LYCES	OS LYCOPERSICON ESCULENTUM (TOMATO).,
9	NLT2_TOBAC	OS NICOTIANA TABACUM (COMMON TOBACCO).,
10	NTL2_LYCES	lipid transport 2

(*) 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

PHYLIP unrooted tree

Download a PostScript version of the output

Raw Phylip format tree

(
(
NLTP_CICAR:0.19915,
(
NLT3_ORYSA:0.25451,
NLTP_DAUCA:0.26723)
:0.02244)
:0.01648,
(
NLT1_PRUDU:0.19503,
NLT1_GOSHI:0.18550)
:0.03733,
(
(
NLTP_BETVU:0.15905,
NLTP_SPIOL:0.11921)
:0.05414,
(
(
NLT1_LYCES:0.06250,
NLT2_TOBAC:0.06031)
:0.04070,
NTL2_LYCES:0.11281)
:0.09447)
:0.02561);

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.