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<!-- ============================================
::DATATOOL:: Generated from "blastxml.asn"
::DATATOOL:: by application DATATOOL version 2.0.0
::DATATOOL:: on 08/02/2010 23:05:14
============================================ -->
<!-- ============================================ -->
<!-- This section is mapped from module "NCBI-BlastOutput"
================================================= -->
<!--$Id: blastxml.asn 100080 2007-03-12 16:05:35Z kazimird $ -->
<!ELEMENT BlastOutput (
BlastOutput_program,
BlastOutput_version,
BlastOutput_reference,
BlastOutput_db,
BlastOutput_query-ID,
BlastOutput_query-def,
BlastOutput_query-len,
BlastOutput_query-seq?,
BlastOutput_param,
BlastOutput_iterations,
BlastOutput_mbstat?)>
<!-- BLAST program: blastp, tblastx etc. -->
<!ELEMENT BlastOutput_program (#PCDATA)>
<!-- Program version -->
<!ELEMENT BlastOutput_version (#PCDATA)>
<!-- Steven, David, Tom and others -->
<!ELEMENT BlastOutput_reference (#PCDATA)>
<!-- BLAST Database name -->
<!ELEMENT BlastOutput_db (#PCDATA)>
<!-- SeqId of query -->
<!ELEMENT BlastOutput_query-ID (#PCDATA)>
<!-- Definition line of query -->
<!ELEMENT BlastOutput_query-def (#PCDATA)>
<!-- length of query sequence -->
<!ELEMENT BlastOutput_query-len (%INTEGER;)>
<!-- query sequence itself -->
<!ELEMENT BlastOutput_query-seq (#PCDATA)>
<!-- search parameters -->
<!ELEMENT BlastOutput_param (Parameters)>
<!ELEMENT BlastOutput_iterations (Iteration*)>
<!-- Mega BLAST search statistics -->
<!ELEMENT BlastOutput_mbstat (Statistics)>
<!ELEMENT Iteration (
Iteration_iter-num,
Iteration_query-ID?,
Iteration_query-def?,
Iteration_query-len?,
Iteration_hits?,
Iteration_stat?,
Iteration_message?)>
<!-- iteration number -->
<!ELEMENT Iteration_iter-num (%INTEGER;)>
<!-- SeqId of query -->
<!ELEMENT Iteration_query-ID (#PCDATA)>
<!-- Definition line of query -->
<!ELEMENT Iteration_query-def (#PCDATA)>
<!-- length of query sequence -->
<!ELEMENT Iteration_query-len (%INTEGER;)>
<!-- Hits one for every db sequence -->
<!ELEMENT Iteration_hits (Hit*)>
<!-- search statistics -->
<!ELEMENT Iteration_stat (Statistics)>
<!-- Some (error?) information -->
<!ELEMENT Iteration_message (#PCDATA)>
<!ELEMENT Parameters (
Parameters_matrix?,
Parameters_expect,
Parameters_include?,
Parameters_sc-match?,
Parameters_sc-mismatch?,
Parameters_gap-open,
Parameters_gap-extend,
Parameters_filter?,
Parameters_pattern?,
Parameters_entrez-query?)>
<!-- Matrix used (-M) -->
<!ELEMENT Parameters_matrix (#PCDATA)>
<!-- Expectation threshold (-e) -->
<!ELEMENT Parameters_expect (%REAL;)>
<!-- Inclusion threshold (-h) -->
<!ELEMENT Parameters_include (%REAL;)>
<!-- match score for NT (-r) -->
<!ELEMENT Parameters_sc-match (%INTEGER;)>
<!-- mismatch score for NT (-q) -->
<!ELEMENT Parameters_sc-mismatch (%INTEGER;)>
<!-- Gap opening cost (-G) -->
<!ELEMENT Parameters_gap-open (%INTEGER;)>
<!-- Gap extension cost (-E) -->
<!ELEMENT Parameters_gap-extend (%INTEGER;)>
<!-- Filtering options (-F) -->
<!ELEMENT Parameters_filter (#PCDATA)>
<!-- PHI-BLAST pattern -->
<!ELEMENT Parameters_pattern (#PCDATA)>
<!-- Limit of request to Entrez query -->
<!ELEMENT Parameters_entrez-query (#PCDATA)>
<!ELEMENT Statistics (
Statistics_db-num,
Statistics_db-len,
Statistics_hsp-len,
Statistics_eff-space,
Statistics_kappa,
Statistics_lambda,
Statistics_entropy)>
<!-- Number of sequences in BLAST db -->
<!ELEMENT Statistics_db-num (%INTEGER;)>
<!-- Length of BLAST db -->
<!ELEMENT Statistics_db-len (%INTEGER;)>
<!-- Effective HSP length -->
<!ELEMENT Statistics_hsp-len (%INTEGER;)>
<!-- Effective search space -->
<!ELEMENT Statistics_eff-space (%REAL;)>
<!-- Karlin-Altschul parameter K -->
<!ELEMENT Statistics_kappa (%REAL;)>
<!-- Karlin-Altschul parameter Lambda -->
<!ELEMENT Statistics_lambda (%REAL;)>
<!-- Karlin-Altschul parameter H -->
<!ELEMENT Statistics_entropy (%REAL;)>
<!ELEMENT Hit (
Hit_num,
Hit_id,
Hit_def,
Hit_accession,
Hit_len,
Hit_hsps?)>
<!-- hit number -->
<!ELEMENT Hit_num (%INTEGER;)>
<!-- SeqId of subject -->
<!ELEMENT Hit_id (#PCDATA)>
<!-- definition line of subject -->
<!ELEMENT Hit_def (#PCDATA)>
<!-- accession -->
<!ELEMENT Hit_accession (#PCDATA)>
<!-- length of subject -->
<!ELEMENT Hit_len (%INTEGER;)>
<!-- all HSP regions for the given subject -->
<!ELEMENT Hit_hsps (Hsp*)>
<!ELEMENT Hsp (
Hsp_num,
Hsp_bit-score,
Hsp_score,
Hsp_evalue,
Hsp_query-from,
Hsp_query-to,
Hsp_hit-from,
Hsp_hit-to,
Hsp_pattern-from?,
Hsp_pattern-to?,
Hsp_query-frame?,
Hsp_hit-frame?,
Hsp_identity?,
Hsp_positive?,
Hsp_gaps?,
Hsp_align-len?,
Hsp_density?,
Hsp_qseq,
Hsp_hseq,
Hsp_midline?)>
<!-- HSP number -->
<!ELEMENT Hsp_num (%INTEGER;)>
<!-- score (in bits) of HSP -->
<!ELEMENT Hsp_bit-score (%REAL;)>
<!-- score of HSP -->
<!ELEMENT Hsp_score (%REAL;)>
<!-- e-value of HSP -->
<!ELEMENT Hsp_evalue (%REAL;)>
<!-- start of HSP in query -->
<!ELEMENT Hsp_query-from (%INTEGER;)>
<!-- end of HSP -->
<!ELEMENT Hsp_query-to (%INTEGER;)>
<!-- start of HSP in subject -->
<!ELEMENT Hsp_hit-from (%INTEGER;)>
<!-- end of HSP in subject -->
<!ELEMENT Hsp_hit-to (%INTEGER;)>
<!-- start of PHI-BLAST pattern -->
<!ELEMENT Hsp_pattern-from (%INTEGER;)>
<!-- end of PHI-BLAST pattern -->
<!ELEMENT Hsp_pattern-to (%INTEGER;)>
<!-- translation frame of query -->
<!ELEMENT Hsp_query-frame (%INTEGER;)>
<!-- translation frame of subject -->
<!ELEMENT Hsp_hit-frame (%INTEGER;)>
<!-- number of identities in HSP -->
<!ELEMENT Hsp_identity (%INTEGER;)>
<!-- number of positives in HSP -->
<!ELEMENT Hsp_positive (%INTEGER;)>
<!-- number of gaps in HSP -->
<!ELEMENT Hsp_gaps (%INTEGER;)>
<!-- length of the alignment used -->
<!ELEMENT Hsp_align-len (%INTEGER;)>
<!-- score density -->
<!ELEMENT Hsp_density (%INTEGER;)>
<!-- alignment string for the query (with gaps) -->
<!ELEMENT Hsp_qseq (#PCDATA)>
<!-- alignment string for subject (with gaps) -->
<!ELEMENT Hsp_hseq (#PCDATA)>
<!-- formating middle line -->
<!ELEMENT Hsp_midline (#PCDATA)>
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