HomeAll softwareProductsNew ProductsServicesManagement teamCorporate ProfileContact

Test online

Gene finding
Gene finding with similarity
Gene finding in Bacteria
Gene finding in Viruses
Next Generation
Gene search
Gene explorer
Protein location
RNA structure
Protein structure
Multiple alignment
Analysis of expression data
Plant promoter database
Search and map repeats
Extracting known SNPs




ScanWM-PL / Search for weight matrix patterns of plant regulatory sequences

Paste nucleotide sequence here:

Alternatively, load a local file with sequence in Fasta format:
Local file name:

Direct chain

Inverse chain

Advanced options [see example of value in (..)]:

Threshold type - way of entering "cut-off values" for weight matrixes.
When "threshold type" is 1 the "cut-off value" = "average" - "threshold value" * "std_dev", where: "average" is an average deviation; "std_dev" is a root-mean-square deviation.
When "threshold type" is 2 the "cut-off value" = "wm_min_value" + "threshold value" * ("wm_max_value"-"wm_min_value"), where "wm_min_value", "wm_max_value" is minimal and maximal weights which the weight matrix can give. "Threshold value" here should belong to an interval (0; 1).
Threshold value
Put here other options, if any.

[Help] [Hide advanced options

Your use of Softberry programs signifies that you accept Terms of Use

Last modification date: 24 Jul 2007

© 2021 www.softberry.com