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EBIEMBL-EBI Web Serviceshelpmatrix

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Table of Contents

About Matrices

For more information see Matrix Help Page.

Protein Matrices

Tool Matrix Option Value
EMBOSS BLOSUM30 EBLOSUM30
BLOSUM35 EBLOSUM35
BLOSUM40 EBLOSUM40
BLOSUM45 EBLOSUM45
BLOSUM50 EBLOSUM50
BLOSUM55 EBLOSUM55
BLOSUM60 EBLOSUM60
BLOSUM62 EBLOSUM62
BLOSUM62-12 EBLOSUM62-12
BLOSUM65 EBLOSUM65
BLOSUM70 EBLOSUM70
BLOSUM75 EBLOSUM75
BLOSUM80 EBLOSUM80
BLOSUM85 EBLOSUM85
BLOSUM90 EBLOSUM90
BLOSUMN EBLOSUMN
PAM10 EPAM10
PAM20 EPAM20
PAM30 EPAM30
PAM40 EPAM40
PAM50 EPAM50
PAM60 EPAM60
PAM70 EPAM70
PAM80 EPAM80
PAM90 EPAM90
PAM100 EPAM100
PAM110 EPAM110
PAM120 EPAM120
PAM130 EPAM130
PAM140 EPAM140
PAM150 EPAM150
PAM160 EPAM160
PAM170 EPAM170
PAM180 EPAM180
PAM190 EPAM190
PAM200 EPAM200
PAM210 EPAM210
PAM220 EPAM220
PAM230 EPAM230
PAM240 EPAM240
PAM250 EPAM250
PAM260 EPAM260
PAM270 EPAM270
PAM280 EPAM280
PAM290 EPAM290
PAM300 EPAM300
PAM310 EPAM310
PAM320 EPAM320
PAM330 EPAM330
PAM340 EPAM340
PAM350 EPAM350
PAM360 EPAM360
PAM370 EPAM370
PAM380 EPAM380
PAM390 EPAM390
PAM400 EPAM400
PAM410 EPAM410
PAM420 EPAM420
PAM430 EPAM430
PAM440 EPAM440
PAM450 EPAM450
PAM460 EPAM460
PAM470 EPAM470
PAM480 EPAM480
PAM490 EPAM490
PAM500 EPAM500
FASTA BLOSUM50 BL50
BLOSUM62 BL62
BLOSUM80 BL80
MDM10 M10
MDM20 M20
MDM40 M40
PAM120 P120
PAM250 P250
MPSrch PAM matrices via the PAM option PAM100
BLOSUM50 blosum50
BLOSUM62 blosum62
BLOSUM70 blosum70
BLOSUM100 blosum100
NCBI BLAST BLOSUM45 blosum45
BLOSUM50 blosum50
BLOSUM62 blosum62
BLOSUM80 blosum80
BLOSUM90 blosum90
PAM30 pam30
PAM70 pam70
PAM250 pam250
ScanPS BLOSUM35 blosum35
BLOSUM50 blosum50
BLOSUM62 blosum62
PAM30 pam30
PAM100 pam100
PAM250 pam250
WU-BLAST BLOSUM30 blosum30
BLOSUM35 blosum35
BLOSUM40 blosum40
BLOSUM45 blosum45
BLOSUM50 blosum50
BLOSUM62 blosum62
BLOSUM65 blosum65
BLOSUM70 blosum70
BLOSUM75 blosum75
BLOSUM80 blosum80
BLOSUM85 blosum85
BLOSUM90 blosum90
BLOSUM100 blosum100
GONNET GONNET
PAM10 pam10
PAM20 pam20
PAM30 pam30
PAM40 pam40
PAM50 pam50
PAM60 pam60
PAM70 pam70
PAM80 pam80
PAM90 pam90
PAM100 pam100
PAM110 pam110
PAM120 pam120
PAM130 pam130
PAM140 pam140
PAM150 pam150
PAM160 pam160
PAM170 pam170
PAM180 pam180
PAM190 pam190
PAM200 pam200
PAM210 pam210
PAM220 pam220
PAM230 pam230
PAM240 pam240
PAM250 pam250
PAM260 pam260
PAM270 pam270
PAM280 pam280
PAM290 pam290
PAM300 pam300
PAM310 pam310
PAM320 pam320
PAM330 pam330
PAM340 pam340
PAM350 pam350
PAM360 pam360
PAM370 pam370
PAM380 pam380
PAM390 pam390
PAM400 pam400
PAM410 pam410
PAM420 pam420
PAM430 pam430
PAM440 pam440
PAM450 pam450
PAM460 pam460
PAM470 pam470
PAM480 pam480
PAM490 pam490
PAM500 pam500

Nucleotide Matrices

Tool Matrix Option Value
EMBOSS DNA, with ambiguity EDNAFULL
DNA, identity only EDNAMAT
FASTA none
NCBI BLAST match/missmatch scores used
WU-BLAST Identity 4.2 identity.4.2
Identity 4.4 identity.4.4
 
help/matrix.1260787745.txt · Last modified: 2010/04/22 11:45 (external edit)
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