note - FIZ Karlsruhe

RUN GETSIM using the translated (/TSQN) option
=> FILE DGENE
FILE 'DGENE' ENTERED AT 18:08:31 ON 28 DEC 2010
COPYRIGHT (C) 2010 THOMSON REUTERS
1147 ANSWERS FOUND ABOVE A THRESHOLD OF 75
QUERY SELF SCORE VALUE IS 615
BEST ANSWER SCORE VALUE IS 615
Similarity
Score
615 |
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Answer Count 230 460 690 920 1150
ENTER EITHER THE NUMBER OF ANSWERS YOU WISH TO KEEP
OR ENTER MINIMUM PERCENT OF SELF SCORE FOLLOWED BY %
(BEST ANSWER PERCENTAGE OF SELF SCORE IS 100%)
ENTER (ALL) OR ? :50% In this example, answers with at least 50% of
L1 RUN STATEMENT CREATED the Query Self Score are are selected (L1).
L1 46 GQIFSRSASPIPRPPRGLAAHHWLNFLQAAYRLEPGPSSYDFHQLKKFLK
IALETPARICPINYSLLASLLPKGYPGRVNEILHILIQTQ/TSQN
Answer set arranged by accession number; to sort by descending
similarity score, enter at an arrow prompt (=>) "sor score d".
Sort similarity score descending
=> SOR SCORE D
PROCESSING COMPLETED FOR L1
L2 46 SOR L1 SCORE D
Advanced similarity searching
=> RUN GETSIM GQIFSRSASPIPRPPRGLAAHHWLNFLQAAYRLEPGPSSYDFHQLKKFLKIALETPARICPINY
SLLASLLPKGYPGRVNEILHILIQTQ/TSQN
Sequence queries can be entered
RUN GETSIM AT 18:08:42 ON 28 DEC 2010
COPYRIGHT (C) 2010 FIZ KARLSRUHE GMBH
. . . .
directly on the command line, or
sent as a plain text file via the
Query Upload Wizard (page 14).
The Query Self Score value is the ideal
score for a perfect answer match.
The Best Answer Score value is also
given. In this example, there is at least
one perfect answer match to the query.
The graphic representation gives a count
of hit sequences (x-axis) and similarity
score (y-axis). The graph gives a visual
clue about the proportion of similar and
not so similar sequences in the answer set.
GENESEQ on STN (DGENE) Workshop Manual | Page 75