<!-- ************************************************************* -->
<!--         BSML (tm) Bioinformatic Sequence Markup Language      -->
<!--                               for                             -->
<!--                         Base By Base BBB                      -->
<!--     Document Type Definition DTD Version 1.0 Oct. 11 2019     -->
<!--                          4Virology.net                        -->
<!--                         Dr. Chris Upton                       -->
<!--                     University of Victoria                    -->
<!-- ************************************************************* -->
<!-- ************************************************************* -->
<!--         BSML (tm) Bioinformatic Sequence Markup Language      -->
<!--     Document Type Definition DTD Version 3.1 June 12, 2002    -->
<!--                     Copyright 1998 - 2002                     -->
<!--                          LabBook, Inc.                        -->
<!--                  Joseph H Spitzner 1942-2015                  -->
<!--        Thank you Dr. Joseph H Sitzner for contributing in     -->
<!--                    Bioinformatics research                    -->
<!-- ************************************************************* -->
<!-- This document defines an XML-compliant DTD for the            -->
<!-- representation and display of genetic sequence information.   -->
<!-- ************************************************************* -->
<!--            CDATA attribute values defined by entities.        -->
<!-- ************************************************************* -->
<!-- ************************************************************* -->
<!--                General Parameter Entity Definitions           -->
<!-- ************************************************************* -->
<!ENTITY amp "&#38;#38;">
<!ENTITY lt "&#38;#60;">
<!ENTITY gt "&#62;">
<!ENTITY quot "&#34;">
<!ENTITY apos "&#39;">
<!ENTITY % yesorno "CDATA">
<!-- boolean as 1=true|0=false -->
<!ENTITY % integer "CDATA">
<!-- positive or negative int  -->
<!ENTITY % real "CDATA">
<!-- positive or negative real -->
<!ENTITY % length "CDATA">
<!-- length units (see 1.1)    -->
<!ENTITY % linewidth "CDATA">
<!-- line width (see 1.2)      -->
<!ENTITY % linestyle "(solid|dash|dot|none)">
<!-- style of line   -->
<!ENTITY % displayshape "(ellipse|rectangle|roundrectangle|triangle|borderless)">
<!-- display state -->
<!ENTITY % displaystate "(on | off | gray)">
<!-- connector style for networks -->
<!ENTITY % connectortype "(none | ball | arrow)">
<!ENTITY % textposition "(above|below|left|right)">
<!--                                                               -->
<!--     The following entities were adapted from html 4.0:        -->
<!--                                                               -->
<!ENTITY % color "CDATA">
<!-- name, RGB value (see 1.3)  -->
<!ENTITY % contenttype "CDATA">
<!-- media type,RFC2045         -->
<!ENTITY % character "CDATA">
<!-- one character,ISO10646     -->
<!ENTITY % mediadesc "CDATA">
<!-- single or comma-separated
                                     list of media descriptors     -->
<!ENTITY % url "CDATA">
<!-- Uniform Res. Locator,RFC1808,RFC1738 -->
<!ENTITY % datetime "CDATA">
<!-- date,time ISO 8601 format  -->
<!-- 2001-08-01T13:04:00 -->
<!ENTITY % date "CDATA">
<!-- date ISO 8601 format       -->
<!-- 2001-01-31 -->
<!ENTITY % script "CDATA">
<!-- script expression          -->
<!ENTITY % text "CDATA">
<!-- render as CDATA            -->
<!ENTITY % shape "(rect|circle|poly|default)">
<!-- image maps  -->
<!ENTITY % coords "CDATA">
<!-- comma sep list of numbers  -->
<!ENTITY % frametarget "CDATA">
<!-- render in this frame       -->
<!--
********************      Length: Units of Distance    ***************
Locations on the page and distance values such as line lengths are
specified in terms of horizontal and vertical coordinates, expressed
as a %length attribute value. Distance and location may use a variety
of measures:

o px = pixels
o cm = centimeters
o in = inches
o pt = points (1 pt = 1/72 in)
o % = percentage of the page width (length)

The default measurement unit is set in an attribute of the Display element,
(e.g., default-unit="cm"). This unit is supplied if no unit is specified
(e.g., hloc="10"). It is permissible to specify horizontal and vertical
coordinates of a point in different dimension units, e.g.,
hloc="10.2cm" vloc="20%". If a length is followed by "@idV:" and an
object's ID, the value is taken from a location or size of the corresponding
widget. "V" is one of the following:

x : horizontal center
y : vertical center
w : width
h : height
l : left
r : right
t : top
b : bottom

For example, if a sequence view-line with id="VLN1" has a horizontal center
of 300 pixels, a horizontal length of "20px@idx:VLN1" returns a value of 320
pixels. This method is most commonly used in resolving coordinates on the
display page.
-->
<!--
**********************  Units of Line Width   ******************
Line width is specified in an attribute with the value %linewidth, which
may be expressed as a relative or absolute value, or using one of a set of
enumerated types:

o Absolute value units include pixels (px), inches (in) and
  centimeters (cm), e.g.,line-width="0.01in".
o Relative values are stated without units as values between 1
 (thinnest) and 7 (thickest). The value of the thinnest line is
  specified as an attribute of the Display element (e.g., line-width-base="0.01in").
  The increment applied from one step to another is specified as an attribute of the
  Display element (e.g., line-width-inc="0.005in"). Thus the absolute value of a
  relative value is calculated by adding a multiple of line-width-inc to
  line-width-base, e.g., 3=line-width-base+2*line-width-inc.
o Enumerated values selected from "thin","medium","thick", which
  correspond to relative values of 1, 2, and 4, respectively.
-->
<!--
*********************  Colors (from HTML 4.0) **********************
An attribute value type "color" (%color) may be either a hexadecimal number
(prefixed by a hash mark) or one of the following 16 color names:

             Black   = "#000000"          Green  = "#008000"
             Silver  = "#C0C0C0"          Lime   = "#00FF00"
             Gray    = "#808080"          Olive  = "#808000"
             White   = "#FFFFFF"          Yellow = "#FFFF00"
             Maroon  = "#800000"          Navy   = "#000080"
             Red     = "#FF0000"          Blue   = "#0000FF"
             Purple  = "#800080"          Teal   = "#008080"
             Fuchsia = "#FF00FF"          Aqua   = "#00FFFF"

Thus the color values "#800080" and "Purple" both refer to the color purple.
-->
<!-- ************************************************************* -->
<!--      General attributes applied to most elements              -->
<!-- ************************************************************* -->
<!ENTITY % mainattrs "id          ID         #IMPLIED
					  class       CDATA      #IMPLIED
					  editstatus  CDATA      #IMPLIED
					  title       CDATA      #IMPLIED
					  comment     CDATA      #IMPLIED
					  value-type  CDATA      #IMPLIED
					  value       CDATA      #IMPLIED
					  selectable  %yesorno;  #IMPLIED
					  selected    %yesorno;  #IMPLIED
					  display     %yesorno;  #IMPLIED
					  readonly    %yesorno;  #IMPLIED">
<!--   Events used to define actions when element are selected:    -->
<!ENTITY % events "onclick     %script;   #IMPLIED
				  ondblclick  %script;   #IMPLIED
				  onmousedown %script;   #IMPLIED
				  onmouseup   %script;   #IMPLIED
				  onmouseover %script;   #IMPLIED
				  onmousemove %script;   #IMPLIED
				  onmouseout  %script;   #IMPLIED
				  onkeypress  %script;   #IMPLIED
				  onkeydown   %script;   #IMPLIED
				  onkeyup     %script;   #IMPLIED">
<!ENTITY % attrs "%mainattrs; %events;">
<!--
Note: attrs is added as an attribute group for all major elements.
-->
<!-- ************************************************************* -->
<!--         XML Linking Elements and Generic Descriptors          -->
<!-- ************************************************************* -->
<!ENTITY % datatype "(integer|float|character)">
<!-- data types  -->
<!ELEMENT Attribute EMPTY>
<!ATTLIST Attribute
	name CDATA #REQUIRED
	content CDATA #IMPLIED
	type %datatype; #IMPLIED
>
<!ELEMENT Attribute-list (Attribute)*>
<!ATTLIST Attribute-list
	%attrs;
	idref IDREF #IMPLIED
>
<!ELEMENT Info (Attribute)*>
<!ATTLIST Info
	%attrs;
	idref IDREF #IMPLIED
>
<!--
Note: Cross-reference may be used as a linking element in place of the
qualifier dbxref entry. This allows specification of the context
and role of the cross-reference, e.g., role="mouse homolog"
-->
<!ELEMENT Cross-reference EMPTY>
<!ATTLIST Cross-reference
	id ID #IMPLIED
	context CDATA #IMPLIED
	database CDATA #IMPLIED
	identifier CDATA #IMPLIED
	identifier-type CDATA #IMPLIED
	title CDATA #IMPLIED
	behavior CDATA #IMPLIED
	href CDATA #IMPLIED
	role CDATA #IMPLIED
>
<!ELEMENT Locator EMPTY>
<!ATTLIST Locator
	id ID #IMPLIED
	xml-link CDATA #FIXED "LOCATOR"
	role CDATA #IMPLIED
	href CDATA #REQUIRED
	title CDATA #IMPLIED
	rel CDATA #IMPLIED
	rev CDATA #IMPLIED
	show (embed | replace | new) "embed"
	actuate (auto | user) "user"
	behavior CDATA #IMPLIED
>
<!ELEMENT Link EMPTY>
<!ATTLIST Link
	id ID #IMPLIED
	xml-link CDATA #FIXED "SIMPLE"
	role CDATA #IMPLIED
	href CDATA #REQUIRED
	title CDATA #IMPLIED
	rel CDATA #IMPLIED
	rev CDATA #IMPLIED
	show (embed | replace | new) "embed"
	actuate (auto | user) "user"
	behavior CDATA #IMPLIED
>
<!ELEMENT Extended-link (Locator | Cross-reference)*>
<!ATTLIST Extended-link
	id ID #IMPLIED
	xml-link CDATA #FIXED "EXTENDED"
	inline CDATA #FIXED "TRUE"
	content-title CDATA #IMPLIED
	content-role CDATA #IMPLIED
	role CDATA #IMPLIED
	href CDATA #IMPLIED
	title CDATA #IMPLIED
	rel CDATA #IMPLIED
	rev CDATA #IMPLIED
	show (embed | replace | new) "embed"
	actuate (auto | user) "user"
	behavior CDATA #IMPLIED
>
<!ELEMENT Document-link EMPTY>
<!ATTLIST Document-link
	id ID #IMPLIED
	xml-link CDATA #FIXED "DOCUMENT"
	role CDATA #IMPLIED
	href CDATA #REQUIRED
	title CDATA #IMPLIED
	rel CDATA #IMPLIED
	rev CDATA #IMPLIED
	mime-type CDATA #IMPLIED
	show (embed | replace | new) "embed"
	actuate (auto | user) "user"
	behavior CDATA #IMPLIED
>
<!ELEMENT Group-link (Document-link)*>
<!ATTLIST Group-link
	id ID #IMPLIED
	xml-link CDATA #FIXED "GROUP"
	steps CDATA #IMPLIED
	role CDATA #IMPLIED
	href CDATA #IMPLIED
	title CDATA #IMPLIED
	rel CDATA #IMPLIED
	rev CDATA #IMPLIED
	show (embed | replace | new) "embed"
	actuate (auto | user) "user"
	behavior CDATA #IMPLIED
>
<!ENTITY % links "(Attribute-list|Cross-reference|Link|Extended-link|Group-link)*">
<!-- ************************************************************* -->
<!--              Resource Identification and Description          -->
<!--    New content for resource description; also to be used with -->
<!--    descriptions of sources of information for sequences and   -->
<!--    annotation (supports Dublic Core Initiative).              -->
<!-- ************************************************************* -->
<!ELEMENT Postal-address EMPTY>
<!ATTLIST Postal-address
	building-address1 CDATA #IMPLIED
	building-address2 CDATA #IMPLIED
	street-address1 CDATA #IMPLIED
	street-address2 CDATA #IMPLIED
	city CDATA #IMPLIED
	state-province CDATA #IMPLIED
	country CDATA #IMPLIED
	postal-code CDATA #IMPLIED
	utc-time-zone CDATA #IMPLIED
>
<!ELEMENT Contact-info (Postal-address?)>
<!ATTLIST Contact-info
	telephone-number CDATA #IMPLIED
	cellular-number CDATA #IMPLIED
	fax-number CDATA #IMPLIED
	pager-number CDATA #IMPLIED
	department CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Person (Contact-info?)>
<!ATTLIST Person
	fullname CDATA #IMPLIED
	lastname CDATA #IMPLIED
	firstname CDATA #IMPLIED
	middlename CDATA #IMPLIED
	title CDATA #IMPLIED
	department CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Organization (Contact-info?, Person*)>
<!ATTLIST Organization
	name CDATA #REQUIRED
	description CDATA #IMPLIED
	department CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Software-system (Contact-info?, Person*, Organization*, Version*)>
<!ATTLIST Software-system
	name CDATA #REQUIRED
	description CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Contributor (Person | Organization | Software-system)+>
<!ELEMENT Creator (Person | Organization | Software-system)+>
<!ELEMENT Publisher (Person | Organization | Software-system)+>
<!ELEMENT Rights (#PCDATA)>
<!ATTLIST Rights
	name CDATA #IMPLIED
	description CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Title (#PCDATA)>
<!ELEMENT Type (#PCDATA)>
<!ELEMENT Coverage (#PCDATA)>
<!ATTLIST Coverage
	name CDATA #IMPLIED
	description CDATA #IMPLIED
>
<!ELEMENT Subject (#PCDATA)>
<!ATTLIST Subject
	name CDATA #IMPLIED
	description CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Source (#PCDATA)>
<!ATTLIST Source
	name CDATA #IMPLIED
	description CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Language (#PCDATA)>
<!ATTLIST Language
	name CDATA #IMPLIED
	description CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Relation (#PCDATA)>
<!ATTLIST Relation
	type CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Date EMPTY>
<!ATTLIST Date
	datetime %datetime; #REQUIRED
	role (created | valid | available | issued | modified | other) #IMPLIED
	other CDATA #IMPLIED
>
<!ELEMENT Format (#PCDATA)>
<!ATTLIST Format
	extent CDATA #IMPLIED
	medium CDATA #IMPLIED
>
<!ELEMENT Identifier (#PCDATA)>
<!ATTLIST Identifier
	context CDATA #IMPLIED
	refid CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Version (Organization?, Date?)>
<!ATTLIST Version
	title CDATA #IMPLIED
	description CDATA #IMPLIED
	full-version CDATA #IMPLIED
	major-version CDATA #IMPLIED
	minor-version CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Content (#PCDATA)>
<!ATTLIST Content
	id ID #IMPLIED
	name CDATA #IMPLIED
	description CDATA #IMPLIED
	content-type CDATA #IMPLIED
	role CDATA #IMPLIED
>
<!ELEMENT History (History-event*)>
<!ATTLIST History
	id ID #IMPLIED
	title CDATA #IMPLIED
	description CDATA #IMPLIED
	type CDATA #IMPLIED
>
<!ELEMENT History-event (Date?, Contributor*, History-event-description?, %links;)>
<!ATTLIST History-event
	id ID #IMPLIED
	title CDATA #IMPLIED
	description CDATA #IMPLIED
	type CDATA #IMPLIED
>
<!ELEMENT History-event-description (#PCDATA)>
<!ELEMENT Authority (Authority-url*, Authority-domain*)>
<!ATTLIST Authority
	id ID #IMPLIED
	title CDATA #IMPLIED
	description CDATA #IMPLIED
	type CDATA #IMPLIED
>
<!ELEMENT Authority-url EMPTY>
<!ATTLIST Authority-url
	id ID #IMPLIED
	title CDATA #IMPLIED
	description CDATA #IMPLIED
	type (website | vocabulary-list | identifier-access | other) #IMPLIED
	other-type CDATA #IMPLIED
	content-type %contenttype; #IMPLIED
	url %url; #REQUIRED
>
<!ELEMENT Authority-domain EMPTY>
<!ATTLIST Authority-domain
	title CDATA #IMPLIED
	description CDATA #IMPLIED
	element-name CDATA #REQUIRED
	attribute-name CDATA #REQUIRED
	class-names CDATA #IMPLIED
>
<!ENTITY % metadata "(Attribute | Coverage | Description | Type | Relation |
              Source | Subject | Title | Contributor | Creator | Publisher | 
              Rights | Date | Format | Identifier | Language | Content | 
              Version | History | Authority | %links;)*">
<!ELEMENT Resource (%metadata;)>
<!ATTLIST Resource
	id ID #IMPLIED
	title CDATA #IMPLIED
	url %url; #IMPLIED
>
<!-- ************************************************************* -->
<!--                    Major BSML Document Divisions              -->
<!-- ************************************************************* -->
<!ELEMENT Bsml (Attribute*, Info*, Resource*, Definitions?, Research?, Display?)>
<!--
Note: For the top level Bsml element, the following Attribute
elements (name/content pairs) are commonly defined:
document-title="title of document"
project="name of project" (used with project manager)
project-id="unique project identifer for this document"
author="originator of document"
storage="primary storage location"
owner="user who has complete access to change the document"
create-date="date of origination (yyyy-mm-dd)"
update-date="date of last modification (yyyy-mm-dd)"
-->
<!--
Notes:
1.	The Definitions section may be used without a Research or Display section if the
      goal is simply to encode sequence data; for convenience, a few elements
      in the Definitions section have display-related attributes, but these
      attributes are never required. Thus a BSML document may be used to
      convey data independently of a BSML browser, and the document may be
      read and processed by any suitable XML parsing software.
2.	The Display section provides information that is mainly relevant for
      the graphical display of bioinformatic data and for accessing links
      in other network resources. Much of the content of the Display section
      only has meaning for a browser that works specifically with BSML and
      has been customized to display the widgets defined in the BSML standard.
-->
<!-- ************************************************************* -->
<!--                      Definitions Sub-divisions                -->
<!-- ************************************************************* -->
<!-- ************************************************************* -->
<!ELEMENT Definitions (Attribute*, Genomes?, Sequences?, Isoforms?, Sets?, Tables?, Networks?, Notebook*)>
<!-- ************************************************************* -->
<!--          Genomes, Chromosomes, Cytobands, Extra-chromosomal   -->
<!-- ************************************************************* -->
<!ELEMENT Genomes (Attribute*, Genome*, Resource*, %links;)>
<!ELEMENT Genome (Attribute*, (Organism | Organism-clone | Cell-line)?, Chromosome*, Extrachromosomal-sequence*, Resource*, %links;)>
<!ATTLIST Genome
	%attrs;
	autosomal-chromosome-count %integer; #IMPLIED
	sex-chromosome-count %integer; #IMPLIED
	ploidy-count %integer; #IMPLIED
	distinct-chromosome-count %integer; #IMPLIED
	total-chromosome-count %integer; #IMPLIED
>
<!ELEMENT Chromosome (Cytoband*, Seq-data-import?)>
<!ATTLIST Chromosome
	id ID #IMPLIED
	name CDATA #IMPLIED
	number CDATA #IMPLIED
	length %integer; #IMPLIED
	circular %yesorno; #IMPLIED
	autosomal %yesorno; #IMPLIED
>
<!ELEMENT Extrachromosomal-sequence (Cytoband*, Seq-data-import?)>
<!ATTLIST Extrachromosomal-sequence
	id IDREF #IMPLIED
	type CDATA #IMPLIED
	name CDATA #IMPLIED
	number CDATA #IMPLIED
	length %integer; #IMPLIED
	circular %yesorno; #IMPLIED
>
<!ELEMENT Cytoband EMPTY>
<!ATTLIST Cytoband
	id ID #IMPLIED
	band-name CDATA #IMPLIED
	major-band CDATA #IMPLIED
	minor-band CDATA #IMPLIED
	band-color CDATA #IMPLIED
	band-type (euchromatin | telomere | centromere | heterochromatin) #IMPLIED
	band-start-pos %integer; #IMPLIED
	band-end-pos %integer; #IMPLIED
>
<!-- ************************************************************* -->
<!--          Sequences, Features, Annotation, and Citations       -->
<!-- ************************************************************* -->
<!ELEMENT Sequences (Attribute*, (Sequence | Sequence-import)*, Segment-set*, Resource*, %links;)>
<!ATTLIST Sequences
	%attrs;
>
<!-- ************************************************************* -->
<!--                           Notebook                            -->
<!-- ************************************************************* -->
<!ELEMENT Notebook EMPTY>
<!ATTLIST Notebook
	%attrs;
	notebook %text; #IMPLIED
>
<!-- ************************************************************* -->
<!--                           Sequence-import                     -->
<!-- ************************************************************* -->
<!ELEMENT Sequence-import (Attribute*, Resource*, %links;)>
<!-- imported from file/url -->
<!ATTLIST Sequence-import
	type CDATA #FIXED "bsml"
	source %url; #REQUIRED
	id ID #IMPLIED
>
<!-- ************************************************************* -->
<!--                   Sequence Element (adapted from NCBI)        -->
<!-- ************************************************************* -->
<!ENTITY % dbsource "CDATA">
<!-- database source such as swissprot-->
<!ENTITY % repr-opts "(not-set|virtual|raw|segmented|constructed|
                       reference|consensus|map|derived|other)">
<!ENTITY % segment-opts "(chromosome|chromosomal-contig|clone|sequence-contig|sequence|other)">
<!--                 Sequence representation options               -->
<!ELEMENT Sequence (Attribute*, Feature-tables?, (Seq-data | Seq-data-import)?, Numbering?, Modification*, Segment*, Resource*, %links;)>
<!ATTLIST Sequence
	%attrs;
	locus CDATA #IMPLIED
	ic-acckey CDATA #IMPLIED
	local-acckey CDATA #IMPLIED
	db-source %dbsource; #IMPLIED
	length CDATA #IMPLIED
	end5hang5 %integer; #IMPLIED
	end3hang5 %integer; #IMPLIED
	end5phos %yesorno; #IMPLIED
	end3phos %yesorno; #IMPLIED
	genomeref IDREF #IMPLIED
	trans-table CDATA #IMPLIED
	segmenttype %segment-opts; "sequence"
	dnatype (genomic | cdna) #IMPLIED
	representation %repr-opts; "raw"
	molecule (mol-not-set | dna | rna | aa | na | other-mol) "dna"
	topology (top-not-set | linear | circular | tandem | top-other) "linear"
	strand (std-not-set | ss | ds | mixed | std-other) #IMPLIED
	refs IDREFS #IMPLIED
	alignment-sequence IDREFS #IMPLIED
	alignment-position CDATA #IMPLIED
	alignment-inverted CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                           Segment-set                         -->
<!-- ************************************************************* -->
<!ELEMENT Segment-set (Attribute*, Segment+, Resource*, %links;)>
<!ATTLIST Segment-set
	%attrs;
	seg-set-type CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                                 Segment                       -->
<!-- ************************************************************* -->
<!ELEMENT Segment (Attribute*, Resource*, %links;)>
<!ATTLIST Segment
	%attrs;
	seg-source-type CDATA #IMPLIED
	seg-source CDATA #IMPLIED
	seg-id CDATA #IMPLIED
	seg-url %url; #IMPLIED
	seg-role CDATA #IMPLIED
	seg-start %integer; #IMPLIED
	seg-end %integer; #IMPLIED
	seg-on-complement %integer; #IMPLIED
	seg-translated %yesorno; #IMPLIED
>
<!-- ************************************************************* -->
<!--                            Modification                       -->
<!-- ************************************************************* -->
<!ELEMENT Modification (Attribute*, Resource*, %links;)>
<!--        WIPO ST.25 Modification type -->
<!ATTLIST Modification
	%attrs;
	position %integer; #REQUIRED
	change CDATA #REQUIRED
	source CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                           Sequence Data                       -->
<!-- ************************************************************* -->
<!ELEMENT Seq-data (#PCDATA)>
<!--                dna/rna=IUPACna, protein=IUPACaa               -->
<!-- ************************************************************* -->
<!--                            Location Types                     -->
<!-- ************************************************************* -->
<!ELEMENT Site-loc (Attribute*, Resource*, %links;)>
<!-- one position   -->
<!ATTLIST Site-loc
	%attrs;
	sitepos CDATA #REQUIRED
	fuzzypos CDATA #IMPLIED
	complement %yesorno; "0"
	strand-unknown %yesorno; "0"
>
<!ELEMENT Interval-loc (Attribute*, Resource*, %links;)>
<!ATTLIST Interval-loc
	%attrs;
	startpos CDATA #REQUIRED
	fuzzystart CDATA #IMPLIED
	endpos CDATA #REQUIRED
	fuzzyend CDATA #IMPLIED
	startopen %yesorno; "0"
	endopen %yesorno; "0"
	onepos %yesorno; "0"
	complement %yesorno; "0"
	strand-unknown %yesorno; "0"
	segment-ref IDREF #IMPLIED
>
<!ENTITY % location "(Site-loc|Interval-loc)">
<!-- location entity provides reference to either type of location -->
<!-- ************************************************************* -->
<!--                            Qualifier Types                    -->
<!-- ************************************************************* -->
<!ELEMENT Qualifier (Attribute*, Resource*, %links;)>
<!--        Qualifier uses value-type and value attributes         -->
<!ATTLIST Qualifier
	%attrs;
>
<!-- ************************************************************* -->
<!--                             Feature Types                     -->
<!-- ************************************************************* -->
<!ELEMENT Feature (Attribute*, (%location; | Qualifier)*, Resource*, %links;)>
<!ATTLIST Feature
	%attrs;
	display-auto %yesorno; #IMPLIED
	auto-view IDREF #IMPLIED
	refs IDREFS #IMPLIED
	join %yesorno; #IMPLIED
	group-type CDATA #IMPLIED
	segment-ref IDREF #IMPLIED
	fridge CDATA #IMPLIED
	meltingtemp CDATA #IMPLIED
	name CDATA #IMPLIED
	seq CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                            Reference                          -->
<!-- ************************************************************* -->
<!ELEMENT Reference (Attribute*, RefAuthors?, RefTitle?, RefJournal?, Resource*, %links;)>
<!ATTLIST Reference
	%attrs;
	dbxref CDATA #IMPLIED
	refs IDREFS #IMPLIED
>
<!ELEMENT RefAuthors (#PCDATA)>
<!ELEMENT RefTitle (#PCDATA)>
<!ELEMENT RefJournal (#PCDATA)>
<!-- ************************************************************* -->
<!--                             Feature-group                     -->
<!-- ************************************************************* -->
<!ELEMENT Feature-group-member (#PCDATA)>
<!ATTLIST Feature-group-member
	%attrs;
	featref IDREF #REQUIRED
	feature-type CDATA #IMPLIED
	group-type CDATA #IMPLIED
>
<!ELEMENT Feature-group (Attribute*, Feature-group-member*, Resource*, %links;)>
<!ATTLIST Feature-group
	%attrs;
	group-set CDATA #IMPLIED
>
<!-- Use Feature-group to define a set of related features such as exons comprising a gene
-->
<!-- ************************************************************* -->
<!--                              Digest Set                       -->
<!-- ************************************************************* -->
<!ELEMENT Restriction-enzyme EMPTY>
<!-- record for 1 enzyme -->
<!ATTLIST Restriction-enzyme
	%attrs;
	source CDATA #IMPLIED
	recognition-seq CDATA #IMPLIED
	offset %integer; "0"
	overhang %integer; "0"
	sites CDATA #IMPLIED
>
<!ELEMENT Digest-set (Attribute*, Restriction-enzyme*, Resource*, %links;)>
<!-- set of enzymes   -->
<!ATTLIST Digest-set
	%attrs;
	fragments CDATA #IMPLIED
	units CDATA #IMPLIED
	start-pos %integer; #IMPLIED
	end-pos %integer; #IMPLIED
	min-cuts %integer; #IMPLIED
	max-cuts %integer; #IMPLIED
>
<!-- ************************************************************* -->
<!--                            Feature Table                      -->
<!-- ************************************************************* -->
<!ELEMENT Feature-table (Attribute*, (Reference | Feature | Digest-set)*, Resource*, %links;)>
<!ATTLIST Feature-table
	%attrs;
	feature-count %integer; #IMPLIED
>
<!-- ************************************************************* -->
<!--                               Feature Tables                  -->
<!-- ************************************************************* -->
<!ELEMENT Feature-tables (Attribute | Feature-table | Feature-group)*>
<!ATTLIST Feature-tables
	%attrs;
>
<!-- ************************************************************* -->
<!--                              Seq-data-import                  -->
<!-- ************************************************************* -->
<!--
  IUPACna :  IUPAC 1 letter codes, no spaces
  IUPACaa :  IUPAC 1 letter codes, no spaces
  NCBI2na :  00=A, 01=C, 10=G, 11=T (4 bases per byte)
  NCBI4na :  1 bit each for agct (2 bases per byte)
               0001=A, 0010=C, 0100=G, 1000=T/U
               0101=Purine, 1010=Pyrimidine, etc
-->
<!ELEMENT Seq-data-import (Attribute*)>
<!-- import data only -->
<!ATTLIST Seq-data-import
	%attrs;
	format CDATA #IMPLIED
	source %url; #IMPLIED
	identifier CDATA #IMPLIED
	encrypted %yesorno; #IMPLIED
	start-pos %integer; #IMPLIED
	length %integer; #IMPLIED
>
<!-- ************************************************************* -->
<!--                       Sequence Numbering - NCBI               -->
<!-- ************************************************************* -->
<!-- ************************* Sequence Units ******************** -->
<!--
Internally, the length of every sequence is expressed as a positive integer. Sequences may specify their unit of measurement (bp, cM, etc.) through the use of a Numbering element, which also may define a relative numbering basis or a linear transformation rule for converting internal sequence positions to display values.
Use seqref to associate a numbering basis with a particular sequence,
e.g., sequence to clone to chromosome
-->
<!ELEMENT Numbering EMPTY>
<!ATTLIST Numbering
	%attrs;
	use-numbering %yesorno; #IMPLIED
	type (continuous | real | enumerated | reference) #IMPLIED
	units CDATA #IMPLIED
	a %real; #IMPLIED
	b %real; #IMPLIED
	dec-places %integer; #IMPLIED
	refnum %integer; #IMPLIED
	has-zero %yesorno; #IMPLIED
	ascending %yesorno; #IMPLIED
	names CDATA #IMPLIED
	from-aligns %yesorno; #IMPLIED
	aligns IDREF #IMPLIED
	seqref IDREF #IMPLIED
>
<!-- ************************************************************* -->
<!--                               Isoforms                        -->
<!--  Use Isoforms for alleles, mutations, and SNPs,case records   -->
<!-- ************************************************************* -->
<!ELEMENT Isoforms (Isoform-set | Case-set | Phenotype-set | Genotype-set | Pedigree-set)*>
<!ELEMENT Isoform-set (Attribute*, (Organism | Organism-clone | Cell-line)?, Isoform*, Resource*, %links;)>
<!ATTLIST Isoform-set
	%attrs;
>
<!ELEMENT Isoform (Attribute*, Resource*, %links;)>
<!ATTLIST Isoform
	%attrs;
	seqref IDREF #IMPLIED
	phenoref IDREF #IMPLIED
	url %url; #IMPLIED
	location CDATA #IMPLIED
	change CDATA #IMPLIED
>
<!ELEMENT Phenotype-set (Attribute*, (Organism | Organism-clone | Cell-line)?, Phenotype*, Resource*, %links;)>
<!ATTLIST Phenotype-set
	%attrs;
	population CDATA #IMPLIED
	source CDATA #IMPLIED
	frequency-total CDATA #IMPLIED
>
<!ELEMENT Phenotype (Attribute*, Resource*, %links;)>
<!ATTLIST Phenotype
	%attrs;
	frequency CDATA #IMPLIED
>
<!ELEMENT Case-set (Attribute*, (Organism | Organism-clone | Cell-line)?, Case*, Resource*, %links;)>
<!ATTLIST Case-set
	%attrs;
>
<!ELEMENT Case (Attribute*, (Organism | Organism-clone | Cell-line)?, Isoform*, Life-event*, Genotype-set*, Resource*, %links;)>
<!ATTLIST Case
	%attrs;
	sex (male | female | other | unknown) #IMPLIED
	propositus %yesorno; #IMPLIED
>
<!ELEMENT Life-event EMPTY>
<!ATTLIST Life-event
	life-event-type (birth | marriage | death | abortion-or-stillbirth | other-life-event) #REQUIRED
	year %integer; #REQUIRED
	month %integer; #IMPLIED
	day %integer; #IMPLIED
>
<!ELEMENT Genotype-set (Attribute*, (Organism | Organism-clone | Cell-line)?, Genotype*, Resource*, %links;)>
<!ATTLIST Genotype-set
	%attrs;
	population CDATA #IMPLIED
	source CDATA #IMPLIED
	frequency-total CDATA #IMPLIED
>
<!ELEMENT Genotype (Haplotype*)>
<!ATTLIST Genotype
	%attrs;
	homozygous %yesorno; #IMPLIED
	recessive %yesorno; #IMPLIED
	sex-linked %yesorno; #IMPLIED
	phenoref IDREF #IMPLIED
	affected %yesorno; #IMPLIED
	population CDATA #IMPLIED
	source CDATA #IMPLIED
	frequency-total CDATA #IMPLIED
>
<!ELEMENT Haplotype EMPTY>
<!ATTLIST Haplotype
	%attrs;
	frequency CDATA #IMPLIED
>
<!ELEMENT Pedigree-set (Attribute*, Pedigree*, Resource*, %links;)>
<!ATTLIST Pedigree-set
	%attrs;
>
<!ELEMENT Pedigree (Attribute*, (Organism | Organism-clone | Cell-line)?, Mating*, Resource*, %links;)>
<!ATTLIST Pedigree
	%attrs;
>
<!ELEMENT Mating (Life-event?, Children?)>
<!ATTLIST Mating
	maleref IDREF #REQUIRED
	femaleref IDREF #REQUIRED
	consanguinal %yesorno; #IMPLIED
>
<!ELEMENT Children (Case*)>
<!-- ************************************************************* -->
<!--                               Sets                            -->
<!-- ************************************************************* -->
<!ELEMENT Sets (Attribute*, Set*, Resource*, %links;)>
<!ATTLIST Sets
	%attrs;
>
<!ELEMENT Set (Attribute*, List-member*, Resource*, %links;)>
<!ATTLIST Set
	%attrs;
	idrefs IDREFS #REQUIRED
	refs IDREFS #IMPLIED
>
<!ELEMENT List-member EMPTY>
<!ATTLIST List-member
	%attrs;
	source CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                              Tables                           -->
<!-- ************************************************************* -->
<!ELEMENT Tables (Attribute | Table | Motif-table | Sequence-search-table | Multiple-alignment-table | Seq-pair-alignment | Alignment-point-set | PCR-primer-table | Table-import)*>
<!ATTLIST Tables
	%attrs;
>
<!-- ************************************************************* -->
<!--                          Table-import Definition              -->
<!-- ************************************************************* -->
<!ELEMENT Table-data EMPTY>
<!ATTLIST Table-data
	%attrs;
>
<!-- Note: use title to name table row, if appropriate
use value for comma separated data table row list -->
<!ELEMENT Table-import (Attribute*, Table-data*, Resource*, %links;)>
<!-- internal, if table-data, or external file or internet href -->
<!ATTLIST Table-import
	%attrs;
	format CDATA #IMPLIED
	read-field-desc %yesorno; #IMPLIED
	column-numbers CDATA #IMPLIED
	column-headers CDATA #IMPLIED
	column-starts CDATA #IMPLIED
	column-widths CDATA #IMPLIED
	header-count %integer; #IMPLIED
	display-widths CDATA #IMPLIED
	alignments CDATA #IMPLIED
	font IDREF #IMPLIED
	add-row-numbers %yesorno; #IMPLIED
	locked-columns %integer; #IMPLIED
	source %url; #REQUIRED
	refs IDREFS #IMPLIED
>
<!-- ************************************************************* -->
<!--                          HTML Table                           -->
<!-- ************************************************************* -->
<!-- IETF HTML table standard, see RFC1942                         -->
<!ENTITY % tframe "(void|above|below|hsides|lhs|rhs|vsides|box|border)">
<!ENTITY % trules "(none | groups | rows | cols | all)">
<!ENTITY % talign "(left|center|right)">
<!ENTITY % cellhalign "align (left|center|right|justify|char) #IMPLIED
   char    %character;  #IMPLIED
   charoff %length;     #IMPLIED">
<!ENTITY % cellvalign "valign (top|middle|bottom|baseline) #IMPLIED">
<!ENTITY % scope "(row|col|rowgroup|colgroup)">
<!ELEMENT Table (Caption?, (Col* | Colgroup*), Thead?, Tfoot?, Tbody+)>
<!ELEMENT Caption (#PCDATA)>
<!ELEMENT Thead (Tr)+>
<!ELEMENT Tfoot (Tr)+>
<!ELEMENT Tbody (Tr)+>
<!ELEMENT Colgroup (Col)*>
<!ELEMENT Col EMPTY>
<!ELEMENT Tr (Th | Td)+>
<!ELEMENT Th (#PCDATA)>
<!ELEMENT Td (#PCDATA)>
<!ATTLIST Table
	%attrs;
	summary %text; #IMPLIED
	width %length; #IMPLIED
	border CDATA #IMPLIED
	frame %tframe; #IMPLIED
	rules %trules; #IMPLIED
	cellspacing %length; #IMPLIED
	cellpadding %length; #IMPLIED
>
<!ENTITY % calign "(top|bottom|left|right)">
<!ATTLIST Caption
	%attrs;
>
<!ATTLIST Colgroup
	%attrs;
	span %integer; "1"
	width %length; #IMPLIED
	%cellhalign;
	%cellvalign;
>
<!ATTLIST Col
	%attrs;
	repeat %integer; "1"
	width %length; #IMPLIED
	%cellhalign;
	%cellvalign;
>
<!ATTLIST Thead
	%attrs;
	%cellhalign;
	%cellvalign;
>
<!ATTLIST Tbody
	%attrs;
	%cellhalign;
	%cellvalign;
>
<!ATTLIST Tfoot
	%attrs;
	%cellhalign;
	%cellvalign;
>
<!ATTLIST Tr
	%attrs;
	%cellhalign;
	%cellvalign;
>
<!ATTLIST Th
	%attrs;
	abbr %text; #IMPLIED
	axis CDATA #IMPLIED
	headers IDREFS #IMPLIED
	scope %scope; #IMPLIED
	width %length; #IMPLIED
	rowspan %integer; "1"
	colspan %integer; "1"
	%cellhalign;
	%cellvalign;
>
<!ATTLIST Td
	%attrs;
	abbr %text; #IMPLIED
	axis CDATA #IMPLIED
	headers IDREFS #IMPLIED
	scope %scope; #IMPLIED
	width %length; #IMPLIED
	rowspan %integer; "1"
	colspan %integer; "1"
	%cellhalign;
	%cellvalign;
>
<!-- ************************************************************* -->
<!--                           Motif-table                         -->
<!-- ************************************************************* -->
<!ELEMENT Motif-data (Motif-data*)>
<!ATTLIST Motif-data
	%attrs;
	one-element %yesorno; "0"
	positions CDATA #REQUIRED
	widths CDATA #IMPLIED
	strands CDATA #IMPLIED
	titles CDATA #IMPLIED
	values CDATA #IMPLIED
	markers CDATA #IMPLIED
	overhangs CDATA #IMPLIED
	refs CDATA #IMPLIED
>
<!ELEMENT Sequence-motif (Interval-loc*, Motif-data*)>
<!ATTLIST Sequence-motif
	%attrs;
	display-auto %yesorno; #IMPLIED
	auto-view IDREF #IMPLIED
	seqref IDREF #REQUIRED
	alignment %integer; #IMPLIED
	startpos %integer; #IMPLIED
	endpos %integer; #IMPLIED
	refs CDATA #IMPLIED
>
<!ELEMENT Motif-element EMPTY>
<!-- describes one element of motif -->
<!ATTLIST Motif-element
	%attrs;
	display-auto %yesorno; #IMPLIED
	border-color %color; #IMPLIED
	fill-fg-color %color; #IMPLIED
	fill-bg-color %color; #IMPLIED
	fill-pattern (clear | horiz | vert | fdiag | bdiag | cross | diagcross | solid) #IMPLIED
	column-width %length; #IMPLIED
	show-values %yesorno; #IMPLIED
	show-titles %yesorno; #IMPLIED
	show-no-position %yesorno; #IMPLIED
	state-names CDATA #IMPLIED
	value-scale %integer; #IMPLIED
	value-min %integer; #IMPLIED
	value-max %integer; #IMPLIED
>
<!ELEMENT Motif-table (Attribute*, Numbering?, Interval-loc*, Motif-element*, Sequence-motif*, Resource*, %links;)>
<!ATTLIST Motif-table
	%attrs;
	display-height %length; #IMPLIED
	display-gap %length; #IMPLIED
	point-width %length; #IMPLIED
	title-width %length; #IMPLIED
	value-width %length; #IMPLIED
	values-as-color %yesorno; #IMPLIED
	value-scale %integer; #IMPLIED
	global-length %integer; #IMPLIED
	refs IDREFS #IMPLIED
>
<!-- Note: For further information on the use of the display
parameters, see the browser motif viewer description;
the display attributes are all optional if the goal
is simply to convey information content.                -->
<!-- ************************************************************* -->
<!--                          Alignment-point-set                  -->
<!-- ************************************************************* -->
<!ELEMENT Alignment-point-set (Attribute*, Numbering?, Resource*, %links;)>
<!ATTLIST Alignment-point-set
	%attrs;
	seqids IDREFS #REQUIRED
	featids CDATA #REQUIRED
	captions CDATA #IMPLIED
	consensus %yesorno; #IMPLIED
	numseg %integer; #IMPLIED
	starts CDATA #IMPLIED
	strands CDATA #IMPLIED
	seglens CDATA #IMPLIED
	refs IDREFS #IMPLIED
>
<!-- ************************************************************* -->
<!--                            Seq-pair-alignment                 -->
<!-- ************************************************************* -->
<!ELEMENT Seq-pair-run (Attribute*, Resource*, %links;)>
<!-- run of similarity  -->
<!ATTLIST Seq-pair-run
	id IDREF #IMPLIED
	translated %yesorno; #IMPLIED
	runlength %integer; #REQUIRED
	comprunlength %integer; #IMPLIED
	refpos %integer; #REQUIRED
	refcomplement %yesorno; #IMPLIED
	refdata CDATA #IMPLIED
	comppos %integer; #REQUIRED
	compcomplement %integer; #IMPLIED
	compdata CDATA #IMPLIED
	runscore CDATA #IMPLIED
	runprob CDATA #IMPLIED
	alignment CDATA #IMPLIED
	refs IDREFS #IMPLIED
>
<!ELEMENT Seq-pair-alignment (Attribute*, Seq-pair-run*, Resource*, %links;)>
<!ATTLIST Seq-pair-alignment
	%attrs;
	reftype CDATA #IMPLIED
	refsource CDATA #IMPLIED
	refseq IDREF #REQUIRED
	refxref CDATA #IMPLIED
	refcaption CDATA #IMPLIED
	refstart %integer; #IMPLIED
	refend %integer; #IMPLIED
	reflength %integer; #IMPLIED
	comptype CDATA #IMPLIED
	compsource CDATA #IMPLIED
	compseq IDREF #IMPLIED
	compxref CDATA #IMPLIED
	compcaption CDATA #IMPLIED
	compstart %integer; #IMPLIED
	compend %integer; #IMPLIED
	complength %integer; #IMPLIED
	method CDATA #IMPLIED
	runminscore CDATA #IMPLIED
	runmaxscore CDATA #IMPLIED
	totalscore CDATA #IMPLIED
	refs IDREFS #IMPLIED
>
<!-- ************************************************************* -->
<!--                           Sequence Search              	 -->
<!-- ************************************************************* -->
<!ELEMENT Sequence-search-table (Attribute*, Sequence-search-output?, Resource*, %links;)>
<!ATTLIST Sequence-search-table
	%attrs;
	search-type CDATA #IMPLIED
	url %url; #IMPLIED
	analysis-title CDATA #IMPLIED
	analysisref IDREF #IMPLIED
	queryseqref IDREF #IMPLIED
	query-start %integer; #IMPLIED
	query-length %integer; #IMPLIED
	on-complement %yesorno; #IMPLIED
	translated %yesorno; #IMPLIED
	frames CDATA #IMPLIED
	trans-table CDATA #IMPLIED
	query-data CDATA #IMPLIED
>
<!ELEMENT Sequence-search-output (#PCDATA)>
<!-- ************************************************************* -->
<!--                       Multiple Alignment        			 -->
<!-- ************************************************************* -->
<!ELEMENT Multiple-alignment-table (Attribute*, CLUSTAL-parameters?, Alignment-summary?, Pairwise-alignments?, Aligned-groups?, Sequence-alignment*, Resource*, %links;)>
<!ATTLIST Multiple-alignment-table
	%attrs;
	molecule-type (nucleotide | protein) #REQUIRED
>
<!ELEMENT CLUSTAL-parameters EMPTY>
<!ATTLIST CLUSTAL-parameters
	version CDATA #IMPLIED
	method CDATA #IMPLIED
	output CDATA #IMPLIED
	outorder CDATA #IMPLIED
	ktuple %integer; #IMPLIED
	window %integer; #IMPLIED
	score CDATA #IMPLIED
	topdiags %integer; #IMPLIED
	pairgap %integer; #IMPLIED
	matrix CDATA #IMPLIED
	gapopen %integer; #IMPLIED
	endgaps %integer; #IMPLIED
	gapext %integer; #IMPLIED
	gapdist %integer; #IMPLIED
>
<!ELEMENT Alignment-summary (Aligned-sequence*)>
<!ATTLIST Alignment-summary
	seq-type (nucleotide | protein) #REQUIRED
	seq-format CDATA #REQUIRED
>
<!ELEMENT Aligned-sequence EMPTY>
<!ATTLIST Aligned-sequence
	seqref IDREF #IMPLIED
	start %integer; #IMPLIED
	on-complement %yesorno; #IMPLIED
	translated %yesorno; #IMPLIED
	frame %integer; #IMPLIED
	trans-table CDATA #IMPLIED
	seqnum %integer; #REQUIRED
	name CDATA #REQUIRED
	length %integer; #REQUIRED
>
<!ELEMENT Pairwise-alignments (Aligned-pair*)>
<!ELEMENT Aligned-pair EMPTY>
<!ATTLIST Aligned-pair
	seqnum1 %integer; #REQUIRED
	seqnum2 %integer; #REQUIRED
	score %integer; #REQUIRED
>
<!ELEMENT Aligned-groups (Aligned-group*, Total-alignment)>
<!ATTLIST Aligned-groups
	groups %integer; #REQUIRED
>
<!ELEMENT Aligned-group EMPTY>
<!ATTLIST Aligned-group
	group %integer; #REQUIRED
	total-seq %integer; #REQUIRED
	group-score %integer; #REQUIRED
>
<!ELEMENT Total-alignment EMPTY>
<!ATTLIST Total-alignment
	align-score %integer; #REQUIRED
>
<!ELEMENT Sequence-alignment (Sequence-data*, Alignment-consensus)>
<!ATTLIST Sequence-alignment
	sequences %integer; #REQUIRED
>
<!ELEMENT Sequence-data (#PCDATA)>
<!ATTLIST Sequence-data
	seq-name CDATA #REQUIRED
>
<!ELEMENT Alignment-consensus (#PCDATA)>
<!-- ************************************************************* -->
<!--                          PCR-primer-table 	            	 -->
<!-- ************************************************************* -->
<!ELEMENT PCR-primer-table (Attribute*, PCR-primer*, PCR-summary?, PCR-statistical-analysis?, Resource*, %links;)>
<!ELEMENT PCR-primer (Primer-sequence*, PCR-product?)>
<!ATTLIST PCR-primer
	%attrs;
	seqref IDREF #IMPLIED
>
<!ELEMENT Primer-sequence EMPTY>
<!ATTLIST Primer-sequence
	%attrs;
	primer-left %yesorno; #REQUIRED
	start %integer; #REQUIRED
	length %integer; #REQUIRED
	seq CDATA #REQUIRED
	tm %real; #IMPLIED
	gc-percent %real; #IMPLIED
	any %real; #IMPLIED
	three-end %real; #IMPLIED
>
<!ELEMENT PCR-summary EMPTY>
<!ATTLIST PCR-summary
	seq-size %integer; #REQUIRED
	include-region-size %integer; #REQUIRED
>
<!ELEMENT PCR-product EMPTY>
<!ATTLIST PCR-product
	product-size %integer; #REQUIRED
	pair-any-compl %real; #IMPLIED
	pair-3-compl %real; #IMPLIED
>
<!ELEMENT PCR-statistical-analysis (PCR-statistics+)>
<!ELEMENT PCR-statistics EMPTY>
<!ATTLIST PCR-statistics
	statistics-left %yesorno; #REQUIRED
	considered %integer; #IMPLIED
	too-many-ns %integer; #IMPLIED
	in-target %integer; #IMPLIED
	in-excl-reg %integer; #IMPLIED
	bad-gc-percent %integer; #IMPLIED
	no-gc-clamp %integer; #IMPLIED
	tm-too-low %integer; #IMPLIED
	tm-too-high %integer; #IMPLIED
	high-any-compl %integer; #IMPLIED
	high-3-compl %integer; #IMPLIED
	poly-x %integer; #IMPLIED
	high-end-stab %integer; #IMPLIED
	ok %integer; #IMPLIED
>
<!-- ************************************************************* -->
<!--                Network Representation Linking Elements        -->
<!-- Representation of directed and undirected graphs to be used   -->
<!-- to capture semantics of pathways, etc. using Links to refer   -->
<!-- underlying biological objects.                                -->
<!-- ************************************************************* -->
<!ELEMENT Networks (Network*)>
<!ELEMENT Network (Attribute*, Node*, Arc*, Network-selection-set*, Resource*, %links;)>
<!ATTLIST Network
	%attrs;
	directed %yesorno; #IMPLIED
	weighted %yesorno; #IMPLIED
      allow-multiple-arcs %yesorno; #IMPLIED
>
<!ELEMENT Node (Attribute*, Resource*, %links;)>
<!ATTLIST Node
	%attrs;
	node-type %url; #IMPLIED
	level %integer; #IMPLIED
>
<!ELEMENT Arc (Attribute*, Resource*, %links;)>
<!ATTLIST Arc
	%attrs;
	arc-type %url; #IMPLIED
	sourcenode IDREF #REQUIRED
	destnode IDREF #REQUIRED
	weight CDATA #IMPLIED
>
<!ELEMENT Network-selection-set EMPTY>
<!ATTLIST Network-selection-set
	%attrs;
	node-default-selection-state %displaystate; #REQUIRED
	nodes-on IDREFS #IMPLIED
	nodes-off IDREFS #IMPLIED
	nodes-gray IDREFS #IMPLIED
	arc-default-selection-state %displaystate; #REQUIRED
	arcs-on IDREFS #REQUIRED
	arcs-off IDREFS #REQUIRED
	arcs-gray IDREFS #IMPLIED
	use-node-display-levels %yesorno; #IMPLIED
	initial-node-display-level %integer; #IMPLIED
	show-node-selection-state %yesorno; #IMPLIED
	show-node-expansion-state %yesorno; #IMPLIED
	set-connector-width-from-weight %yesorno; #IMPLIED
	min-weight %real; #IMPLIED
	max-weight %real; #IMPLIED
	min-width %real; #IMPLIED
	max-width %real; #IMPLIED
>
<!-- ************************************************************* -->
<!--                       Research Sub-divisions                  -->
<!-- ************************************************************* -->
<!ELEMENT Research (Attribute*, Searches?, Queries?, Analyses?, Experiments?)>
<!-- ************************************************************* -->
<!--                                Search                         -->
<!-- ************************************************************* -->
<!ELEMENT Searches (Attribute*, Search*)>
<!ELEMENT Search (Attribute*, Search-conditions?, Search-result-map?, Search-result-set*, Resource*, %links;)>
<!ATTLIST Search
	%attrs;
	database CDATA #IMPLIED
	url %url; #IMPLIED
	searchid CDATA #IMPLIED
	total-results %integer; #IMPLIED
	results-per-set %integer; #IMPLIED
>
<!ELEMENT Search-conditions (#PCDATA)>
<!ELEMENT Search-result-map (Search-result-field-desc*)>
<!ATTLIST Search-result-map
	%attrs;
>
<!ELEMENT Search-result-field-desc EMPTY>
<!ATTLIST Search-result-field-desc
	field-number %integer; #IMPLIED
	field-name CDATA #IMPLIED
	field-type CDATA #IMPLIED
>
<!ELEMENT Search-result-set (Search-result-item*)>
<!ATTLIST Search-result-set
	%attrs;
	offset-in-total-result-set %integer; #IMPLIED
	results-this-set %integer; #IMPLIED
>
<!ELEMENT Search-result-item (Search-result-field*, (Link | Cross-reference)*)>
<!ATTLIST Search-result-item
	item-number %integer; #IMPLIED
	select %yesorno; #IMPLIED
>
<!ELEMENT Search-result-field (#PCDATA)>
<!ATTLIST Search-result-field
	field-number %integer; #IMPLIED
	field-name CDATA #IMPLIED
	field-type CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                                 Query                         -->
<!-- ************************************************************* -->
<!ELEMENT Queries (Attribute*, Query*)>
<!ELEMENT Query (Attribute*, Query-request*, Query-return*, Resource*, %links;)>
<!ATTLIST Query
	%attrs;
	description CDATA #IMPLIED
	database CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Query-request (#PCDATA)>
<!ATTLIST Query-request
	%attrs;
	request-desc CDATA #IMPLIED
	request-type CDATA #IMPLIED
>
<!--incorporate SQL or XML or other request -->
<!ELEMENT Query-return (#PCDATA)>
<!ATTLIST Query-return
	%attrs;
	index CDATA #IMPLIED
	return-desc CDATA #IMPLIED
	return-type CDATA #IMPLIED
	hit-count %integer; #IMPLIED
>
<!-- specify return format -->
<!-- ************************************************************* -->
<!--                              Analysis                         -->
<!-- ************************************************************* -->
<!ELEMENT Analyses (Attribute*, Analysis*)>
<!ELEMENT Analysis (Attribute*, Parameter*, Input-data*, Resource*, %links;)>
<!ATTLIST Analysis
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Parameter EMPTY>
<!ATTLIST Parameter
	name CDATA #REQUIRED
	value CDATA #REQUIRED
	type (int | float | string) #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Input-data (#PCDATA)>
<!-- ************************************************************* -->
<!--                              Experiment                       -->
<!-- ************************************************************* -->
<!ELEMENT Experiments (Attribute*, Experiment*)>
<!ELEMENT Experiment (Attribute*, Description?, (Enzyme | Equipment | Materials | Note | Product | Reagent | Sample | Solution | Structure | Supplier | Terminology)*, Protocol*, Resource*, %links;)>
<!ATTLIST Experiment
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Description (#PCDATA | Log-entry | Measure | Measure-range | Link)*>
<!ELEMENT Log-entry (#PCDATA | Measure | Measure-range)*>
<!ATTLIST Log-entry
	id ID #IMPLIED
	event CDATA #IMPLIED
	event-time %datetime; #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Measure-range (Measure+)>
<!ATTLIST Measure-range
	range-type (lt | lte | gt | gte | between-exclusive | between-inclusive) "between-inclusive"
>
<!ELEMENT Measure (Measure-quantity, Measure-units?)>
<!ELEMENT Measure-quantity (#PCDATA)>
<!ELEMENT Measure-units (#PCDATA)>
<!ELEMENT Note (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Note
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Enzyme (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Enzyme
	%attrs;
	url %url; #IMPLIED
	ec-number CDATA #IMPLIED
	recognition-sequence CDATA #IMPLIED
	offset %integer; #IMPLIED
	overhang %integer; #IMPLIED
>
<!ELEMENT Equipment (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Equipment
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Materials (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Materials
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Product (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Product
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Reagent (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Reagent
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Sample (Attribute*, Description?, (Organism | Organism-clone | Cell-line)?, Development-stage?, Tissue-sample*, Resource*, %links;)>
<!ATTLIST Sample
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Solution (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Solution
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Structure (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Structure
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Supplier (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Supplier
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Terminology (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Terminology
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Organism (Attribute*, Description?, Strain*, Resource*, %links;)>
<!ATTLIST Organism
	%attrs;
	genus CDATA #IMPLIED
	species CDATA #IMPLIED
	taxon-num CDATA #IMPLIED
	taxonomy CDATA #IMPLIED
	url %url; #IMPLIED
>
<!ELEMENT Strain (Attribute*, Description?, (Organism-clone | Cell-line)?, Resource*, %links;)>
<!ATTLIST Strain
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Organism-clone (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Organism-clone
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Cell-line (Attribute*, Description?, Resource*, %links;)>
<!ATTLIST Cell-line
	%attrs;
	url %url; #IMPLIED
>
<!ENTITY % timeunits "(msec|seconds|minutes|hours|days|weeks|months|year)">
<!ELEMENT Development-stage (#PCDATA)>
<!ATTLIST Development-stage
	id ID #IMPLIED
	name CDATA #REQUIRED
	stage-age-value CDATA #IMPLIED
	stage-age-units %timeunits; #IMPLIED
>
<!ELEMENT Tissue-sample (#PCDATA)>
<!ATTLIST Tissue-sample
	id ID #IMPLIED
	tissue-type CDATA #IMPLIED
	organ CDATA #IMPLIED
	tissue-age-value CDATA #IMPLIED
	tissue-age-units %timeunits; #IMPLIED
>
<!ELEMENT Protocol (Attribute*, Description?, Protocol-step*, Resource*, %links;)>
<!ATTLIST Protocol
	%attrs;
	url %url; #IMPLIED
>
<!ELEMENT Protocol-step (Attribute*, Note*, Description*, Resource*, %links;)>
<!ATTLIST Protocol-step
	%attrs;
	url %url; #IMPLIED
>
<!-- ************************************************************* -->
<!--                       Display Sub-divisions                   -->
<!-- ************************************************************* -->
<!ELEMENT Display (Links?, Fonts?, Styles?, Screen?, Paper?, Page+)>
<!-- screen and paper set defaults for all pages, if defined       -->
<!ATTLIST Display
	master-doc %yesorno; #IMPLIED
	first-page %integer; #IMPLIED
	default-unit (pct | cm | in | px) "in"
	line-width-base %length; "0.01in"
	line-width-inc %length; "0.01in"
>
<!-- ************************************************************* -->
<!--                           Links Element                       -->
<!-- ************************************************************* -->
<!ELEMENT Links %links;>
<!-- any number of link -->
<!-- ************************************************************* -->
<!--                                Fonts                          -->
<!-- ************************************************************* -->
<!--
BSML uses a modified version of the HTML 4.0 font element. Fonts are described by their face, color, size (pts), and style (bold,italics,underline). Fonts may refer to base fonts and specify only attributes that they wish to change. Display objects refer to a specific font or use default fonts assigned for particular types of text.
-->
<!ELEMENT Fonts (Font*)>
<!-- list of all defined fonts       -->
<!ATTLIST Fonts
	base-font IDREF #IMPLIED
	text-font IDREF #IMPLIED
	numb-font IDREF #IMPLIED
	fixed-font IDREF #IMPLIED
	font-sizes CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                   HTML Fonts -   modified                     -->
<!-- ************************************************************* -->
<!ELEMENT Font EMPTY>
<!-- Not used to enclose text as in html -->
<!ATTLIST Font
	id ID #IMPLIED
	class CDATA #IMPLIED
	title CDATA #IMPLIED
	comment CDATA #IMPLIED
	reffont IDREF #IMPLIED
	size CDATA #IMPLIED
	color CDATA #IMPLIED
	face CDATA #IMPLIED
	bold %yesorno; #IMPLIED
	italic %yesorno; #IMPLIED
	underline %yesorno; #IMPLIED
	fixed %yesorno; "0"
>
<!--
Attribute definitions
size = cdata
This attribute sets the size of the font. Possible values:
o An integer between 1 and 7. This sets the font to a fixed size;
rendering depends on the user agent. Not all user agents may render all seven sizes.
o A relative increase in font size. The value "+1" means one size
larger. The value "-3" means three sizes smaller. All sizes belong to the scale of 1 to 7.
o An absolute size in pts, e.g., size="14pt".
o color = color
This attribute sets the text color.
o face = cdata-list
This attribute defines a comma-separated list of font names the user agent should search for in order of preference.
-->
<!-- ************************************************************* -->
<!--                             Styles                            -->
<!-- ************************************************************* -->
<!ELEMENT Styles (Style-import*, Style?)>
<!-- CSS Style Sheets -->
<!ELEMENT Style-import EMPTY>
<!-- imported Style section -->
<!ATTLIST Style-import
	%attrs;
	source %url; #REQUIRED
>
<!ELEMENT Style (#PCDATA)>
<!-- CSS style info  -->
<!ATTLIST Style
	type %contenttype; #REQUIRED
	media %mediadesc; #IMPLIED
	title %text; #IMPLIED
>
<!-- ************************************************************* -->
<!--                Pages, Views and Display Objects               -->
<!-- ************************************************************* -->
<!-- ************************************************************* -->
<!--            HTML 4.0 Object and Param, slightly modified       -->
<!-- ************************************************************* -->
<!ELEMENT Object (Param)*>
<!ATTLIST Object
	%attrs;
	declare (declare) #IMPLIED
	classid %url; #IMPLIED
	codebase %url; #IMPLIED
	data %url; #IMPLIED
	type %contenttype; #IMPLIED
	codetype %contenttype; #IMPLIED
	archive %url; #IMPLIED
	standby %text; #IMPLIED
	height %length; #IMPLIED
	width %length; #IMPLIED
	usemap %url; #IMPLIED
	shapes (shapes) #IMPLIED
	export (export) #IMPLIED
	name CDATA #IMPLIED
	tabindex %integer; #IMPLIED
>
<!ELEMENT Param EMPTY>
<!ATTLIST Param
	id ID #IMPLIED
	name CDATA #REQUIRED
	value CDATA #IMPLIED
	valuetype (data | ref | object) "data"
	type %contenttype; #IMPLIED
>
<!-- ************************************************************* -->
<!--         HTML 4.0 Client-side image maps slightly modified     -->
<!-- ************************************************************* -->
<!ELEMENT Image-map (Area)+>
<!-- client-side image map -->
<!ATTLIST Image-map
	%attrs;
	name CDATA #REQUIRED
>
<!ELEMENT Area (Attribute*, Resource*, %links;)>
<!-- client-side image map area            -->
<!ATTLIST Area
	%attrs;
	shape %shape; "rect"
	coords %coords; #IMPLIED
	href %url; #IMPLIED
	target %frametarget; #IMPLIED
	nohref (nohref) #IMPLIED
	alt %text; #REQUIRED
	tabindex %integer; #IMPLIED
	accesskey %character; #IMPLIED
	onfocus %script; #IMPLIED
	onblur %script; #IMPLIED
>
<!-- Note: Most of these attributes are not supported by the
current version of the browser.                         -->
<!-- ************************************************************* -->
<!--                       Page Utility Elements                   -->
<!-- ************************************************************* -->
<!ELEMENT Coord EMPTY>
<!-- coordinates of a point -->
<!ATTLIST Coord
	%attrs;
	hloc %length; #IMPLIED
	vloc %length; #IMPLIED
>
<!ELEMENT Quantifier EMPTY>
<!-- display aspect quantifier -->
<!ATTLIST Quantifier
	%attrs;
	type (color | saturation | length) #REQUIRED
	min-val %real; "0.0"
	max-val %real; "1.0"
	val-name CDATA #IMPLIED
	base %real; #IMPLIED
	slope %real; #IMPLIED
	minimum %real; #IMPLIED
	maximum %real; #IMPLIED
	red-base %real; #IMPLIED
	red-slope %real; #IMPLIED
	blue-base %real; #IMPLIED
	blue-slope %real; #IMPLIED
	green-base %real; #IMPLIED
	green-slope %real; #IMPLIED
	to-white %yesorno; #IMPLIED
>
<!ELEMENT Margin EMPTY>
<!-- page and other uses -->
<!ATTLIST Margin
	%attrs;
	margin %length; #IMPLIED
	horizontal %length; #IMPLIED
	vertical %length; #IMPLIED
	left %length; #IMPLIED
	right %length; #IMPLIED
	top %length; #IMPLIED
	bottom %length; #IMPLIED
>
<!ELEMENT Screen (Margin?)>
<!--default attribs of screen display -->
<!ATTLIST Screen
	%attrs;
	width %length; #IMPLIED
	height %length; #IMPLIED
	color %color; #IMPLIED
	monochrome %yesorno; "0"
>
<!ELEMENT Paper (Margin?)>
<!-- default attribs of printed output -->
<!ATTLIST Paper
	%attrs;
	monochrome %yesorno; "0"
	landscape %yesorno; "0"
>
<!ELEMENT Border EMPTY>
<!-- any border around a rectangular area -->
<!ATTLIST Border
	%attrs;
	line-width %linewidth; #IMPLIED
	line-color %color; #IMPLIED
	gutter %length; #IMPLIED
>
<!ELEMENT Symbol EMPTY>
<!-- symbol display object -->
<!ATTLIST Symbol
	%attrs;
	shape (opencircle | closedcircle | opensquare | closedsquare | triangle) #IMPLIED
	color %color; #IMPLIED
	diam %length; #IMPLIED
>
<!ELEMENT X-axis (Numbering?)>
<!-- sequence scale -->
<!ATTLIST X-axis
	use-interval %yesorno; #IMPLIED
	interval-value %integer; #IMPLIED
	tick-length %length; #IMPLIED
	tick-width %linewidth; #IMPLIED
	tick-color %color; #IMPLIED
	axis-font IDREF #IMPLIED
>
<!ELEMENT Y-axis (Numbering?)>
<!-- sequence scale -->
<!ATTLIST Y-axis
	use-interval %yesorno; #IMPLIED
	interval-value %integer; #IMPLIED
	tick-length %length; #IMPLIED
	tick-width %linewidth; #IMPLIED
	tick-color %color; #IMPLIED
	axis-font IDREF #IMPLIED
>
<!ELEMENT Chart (Border?)>
<!-- chart display to locate chart data -->
<!ATTLIST Chart
	%attrs;
	source %url; #IMPLIED
	tableid IDREF #IMPLIED
	bycolumn %yesorno; "1"
	colrownum %integer; #IMPLIED
>
<!ELEMENT Member EMPTY>
<!-- used to define sequence point in group -->
<!ATTLIST Member
	caption CDATA #IMPLIED
	position %integer; #REQUIRED
	plus %yesorno; #IMPLIED
	display %yesorno; #IMPLIED
	value CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                           Display Set Types                   -->
<!-- ************************************************************* -->
<!-- ************************************************************* -->
<!--                             Simple-set                        -->
<!-- ************************************************************* -->
<!ELEMENT Simple-set-widget (Coord, Border?, Set*, Object?, Resource*, %links;)>
<!-- is Set elements, these refer to links-->
<!ATTLIST Simple-set-widget
	%attrs;
	own-window %yesorno; #IMPLIED
	setids IDREFS #IMPLIED
	caption CDATA #IMPLIED
	capt-font IDREF #IMPLIED
	list-font IDREF #IMPLIED
	align (left | center | right) #IMPLIED
	line-link %yesorno; #IMPLIED
	line-width %linewidth; #IMPLIED
	line-color %color; #IMPLIED
	depth %integer; #IMPLIED
	indent %length; #IMPLIED
>
<!-- ************************************************************* -->
<!--                                Tree-set                       -->
<!-- ************************************************************* -->
<!--
Tree-set = hierarchy displayed as tree. Basic display is titles obtained from list by ids; length of branch specified in value of set is relative to branchunit and branchbase; set points to the root of the tree.
-->
<!ELEMENT Tree-node EMPTY>
<!ATTLIST Tree-node
	%attrs;
	hloc %length; #REQUIRED
	vloc %length; #REQUIRED
	setid IDREF #IMPLIED
	parentid IDREF #IMPLIED
	node-font IDREF #IMPLIED
	line-width %linewidth; #IMPLIED
	line-color %color; #IMPLIED
	branchlen %length; #IMPLIED
	text-gap %length; #IMPLIED
	text-space %length; #IMPLIED
	node-caption CDATA #IMPLIED
	node-cap-valign (top | middle | bottom | baseline) #IMPLIED
	node-cap-halign (left | center | right) #IMPLIED
	branch-caption CDATA #IMPLIED
	branch-cap-above %yesorno; #IMPLIED
>
<!ELEMENT Tree-set-widget (Coord, Border?, Tree-node*, Object?, Resource*, %links;)>
<!ATTLIST Tree-set-widget
	%attrs;
	seqtype (nucleotide | protein | both) #IMPLIED
	elementtype (sequence | feature | mixed) #IMPLIED
	caption CDATA #IMPLIED
	capt-font IDREF #IMPLIED
	node-cap-font IDREF #IMPLIED
	branch-cap-font IDREF #IMPLIED
	leaf-value-font IDREF #IMPLIED
	show-leaf-values %yesorno; #IMPLIED
	show-sequence %yesorno; #IMPLIED
	orientation (vertical | horizontal) #IMPLIED
	link-straight %yesorno; #IMPLIED
	node-font IDREF #IMPLIED
	line-width %linewidth; #IMPLIED
	line-color %color; #IMPLIED
	branchlen %length; #IMPLIED
	text-gap %length; #IMPLIED
	text-space %length; #IMPLIED
>
<!-- ************************************************************* -->
<!--                Network Representation Linking Elements        -->
<!-- Representation of directed and undirected graphs to be used   -->
<!-- to capture semantics of pathways, etc. using Links to refer   -->
<!-- underlying biological objects.                                -->
<!-- ************************************************************* -->
<!ENTITY % direction "(default|north|northeast|east|southeast|south|southwest|west|northwest)">
<!ELEMENT Network-display-widget (Coord?, Node-display*, Arc-display*, Object?, Resource*, %links;)>
<!ATTLIST Network-display-widget
	%attrs;
	networkref IDREF #REQUIRED
	canvascolor %color; #IMPLIED
	nodetextfont IDREF #IMPLIED
	nodetextcolor %color; #IMPLIED
	nodebgcolor %color; #IMPLIED
	nodebordercolor %color; #IMPLIED
	nodeborderstrokesize %length; #IMPLIED
	arctextfont IDREF #IMPLIED
	arctextcolor %color; #IMPLIED
	arcdashline %yesorno; #IMPLIED
	arcline-color %color; #IMPLIED
	arcline-width %length; #IMPLIED
	arc-diam %length; #IMPLIED
	arc-len %length; #IMPLIED
	own-window %yesorno; #IMPLIED
	width %length; #IMPLIED
	height %length; #IMPLIED
	draw-border %yesorno; #IMPLIED
	scale-pct %integer; #IMPLIED
	showgrid %yesorno; #IMPLIED
	gridcolor %color; #IMPLIED
	gridspacing %length; #IMPLIED
	shadow %yesorno; #IMPLIED
>
<!ELEMENT Node-display EMPTY>
<!ATTLIST Node-display
	%attrs;
	noderef IDREF #REQUIRED
	networkref IDREF #IMPLIED
	node-icon %url; #IMPLIED
	node-image %url; #IMPLIED
	node-shape %displayshape; #IMPLIED
	text-font-name CDATA #IMPLIED
	text-font-style %integer; #IMPLIED
	text-font-size %integer; #IMPLIED
	textcolor %color; #IMPLIED
	bgcolor %color; #IMPLIED
	bordercolor %color; #IMPLIED
	borderstrokesize %length; #IMPLIED
	left %length; #IMPLIED
	top %length; #IMPLIED
	width %length; #IMPLIED
	height %length; #IMPLIED
	displaystate %displaystate; #IMPLIED
	showexpand %yesorno; #IMPLIED
	showselection %yesorno; #IMPLIED
	expanded %yesorno; #IMPLIED
>
<!ELEMENT Arc-display EMPTY>
<!ATTLIST Arc-display
	%attrs;
	arcref IDREF #IMPLIED
	text-font-name CDATA #IMPLIED
	text-font-style %integer; #IMPLIED
	text-font-size %integer; #IMPLIED
	textcolor %color; #IMPLIED
	text-position %textposition; #IMPLIED
	dashline %yesorno; #IMPLIED
	line-mode (straight | orthogonal) "straight"
	line-color %color; #IMPLIED
	line-width %length; #IMPLIED
	source-point %direction; #IMPLIED
	source-arc-type %connectortype; #IMPLIED
	source-arc-filled %yesorno; #IMPLIED
	source-arc-diam %length; #IMPLIED
	source-arc-len %length; #IMPLIED
	dest-point %direction; #IMPLIED
	dest-arc-type %connectortype; #IMPLIED
	dest-arc-filled %yesorno; #IMPLIED
	dest-arc-diam %length; #IMPLIED
	dest-arc-len %length; #IMPLIED
	display-state %displaystate; #IMPLIED
>
<!-- ************************************************************* -->
<!--                          Alignment-point-sets                 -->
<!-- ************************************************************* -->
<!ELEMENT Alignment-point-sets-widget (Symbol?, Object?, Resource*, %links;)>
<!ATTLIST Alignment-point-sets-widget
	%attrs;
	pointsets IDREFS #REQUIRED
	alignto IDREF #IMPLIED
	viewids IDREFS #REQUIRED
	capt-font IDREF #IMPLIED
	capt-above %yesorno; #IMPLIED
	line-width %length; #IMPLIED
	line-color %color; #IMPLIED
>
<!-- ************************************************************* -->
<!--                 Dot-plot using Seq-pair-alignment             -->
<!-- ************************************************************* -->
<!ELEMENT Dot-plot-widget (Coord, X-axis?, Y-axis?, Quantifier?, Object?, Resource*, %links;)>
<!-- display a dot matrix plot for a pair of sequences showing runs-->
<!ATTLIST Dot-plot-widget
	%attrs;
	seqpair IDREF #REQUIRED
	width %length; #IMPLIED
	height %length; #IMPLIED
	use-x-axis %yesorno; #IMPLIED
	use-y-axis %yesorno; #IMPLIED
	y-proportional %yesorno; #IMPLIED
	y-on-top %yesorno; #IMPLIED
	line-width %linewidth; #IMPLIED
	line-color %color; #IMPLIED
	border-width %linewidth; #IMPLIED
	border-color %color; #IMPLIED
	min-runlength %integer; #IMPLIED
	min-runscore %real; #IMPLIED
	max-runscore %real; #IMPLIED
>
<!ENTITY % setwidgets "(Simple-set-widget|Tree-set-widget|
Alignment-point-sets-widget|Dot-plot-widget)">
<!-- ************************************************************* -->
<!--             View (Sequence)-relative Display Widgets          -->
<!-- ************************************************************* -->
<!ELEMENT View-line-widget EMPTY>
<!ATTLIST View-line-widget
	%attrs;
	strands (one | two) #IMPLIED
	shape (circular | horizontal | vertical) #IMPLIED
	hcenter %length; #IMPLIED
	vcenter %length; #IMPLIED
	haligned %yesorno; #IMPLIED
	halignview IDREF #IMPLIED
	valigned %yesorno; #IMPLIED
	valignview IDREF #IMPLIED
	width %linewidth; #IMPLIED
	gap %length; #IMPLIED
	linear-length %length; #IMPLIED
	circular-diam %length; #IMPLIED
	plus-color %color; #IMPLIED
	minus-color %color; #IMPLIED
	interval-gap-width %length; #IMPLIED
	site-criterion CDATA #IMPLIED
	group-criterion CDATA #IMPLIED
	interval-criterion CDATA #IMPLIED
	interval-as-point CDATA #IMPLIED
>
<!ELEMENT View-axis-widget EMPTY>
<!ATTLIST View-axis-widget
	%attrs;
	linear-at-side %yesorno; #IMPLIED
	linear-offset %length; #IMPLIED
	circular-rotate %yesorno; #IMPLIED
	base-at-top %integer; #IMPLIED
	use-interval %yesorno; #IMPLIED
	interval-value %integer; #IMPLIED
	axis-strand (both | minus | plus) #IMPLIED
	tick-length %length; #IMPLIED
	tick-width %linewidth; #IMPLIED
	tick-color %color; #IMPLIED
	axis-font IDREF #IMPLIED
>
<!ELEMENT Point-widget (Symbol?, Object?, Resource*, %links;)>
<!ATTLIST Point-widget
	%attrs;
	featureref IDREF #IMPLIED
	position %integer; #IMPLIED
	on-strand (both | plus | minus | source) #IMPLIED
	caption CDATA #IMPLIED
	caption-font IDREF #IMPLIED
	position-font IDREF #IMPLIED
	align-text (auto-align | top | center | bottom) #IMPLIED
	text-length %length; #IMPLIED
	wrap-text %yesorno; #IMPLIED
	show-text %yesorno; #IMPLIED
	show-position %yesorno; #IMPLIED
	line-gap %length; #IMPLIED
	text-gap %length; #IMPLIED
	line-width %length; #IMPLIED
	line-color %color; #IMPLIED
	line-length %length; #IMPLIED
>
<!--Point-group may refer to Members, Features, or Point-widgets   -->
<!ELEMENT Point-group-widget (Quantifier?, Member*, Object?, Resource*, %links;)>
<!ATTLIST Point-group-widget
	%attrs;
	featureref IDREF #IMPLIED
	show-as-one %yesorno; #IMPLIED
	check-members %yesorno; #IMPLIED
	group-pos %integer; #IMPLIED
	featurerefs IDREFS #IMPLIED
	sites CDATA #IMPLIED
	on-strand (plus | minus | source | auto-strand) #IMPLIED
	auto-plot %yesorno; #IMPLIED
	one-vert-col %yesorno; #IMPLIED
	defcaption CDATA #IMPLIED
	caption-font IDREF #IMPLIED
	position-font IDREF #IMPLIED
	align-text (auto-align | top | center | bottom) #IMPLIED
	text-length %length; #IMPLIED
	wrap-text %yesorno; #IMPLIED
	show-text %yesorno; #IMPLIED
	show-position %yesorno; #IMPLIED
	line-gap %length; #IMPLIED
	text-gap %length; #IMPLIED
	line-width %length; #IMPLIED
	line-color %color; #IMPLIED
	line-length %length; #IMPLIED
>
<!ELEMENT Interval-widget (Object?, Resource*, %links;)>
<!ATTLIST Interval-widget
	%attrs;
	featureref IDREF #IMPLIED
	startpos %integer; #REQUIRED
	endpos %integer; #REQUIRED
	show-start-err %yesorno; #IMPLIED
	start-err-len %integer; #IMPLIED
	show-end-err %yesorno; #IMPLIED
	end-err-len %integer; #IMPLIED
	on-sequence CDATA #IMPLIED
	gap-in-seq-line %yesorno; #IMPLIED
	show-positions (no | plus | minus) #IMPLIED
	start-pos-only %yesorno; #IMPLIED
	position-font IDREF #IMPLIED
	line-width %linewidth; #IMPLIED
	interior-gap %length; #IMPLIED
	fill-pattern (clear | horiz | vert | fdiag | bdiag | cross | diagcross | solid) #IMPLIED
	border-color %color; #IMPLIED
	fill-fg-color %color; #IMPLIED
	fill-bg-color %color; #IMPLIED
	auto-offset %yesorno; #IMPLIED
	offset-from-seq %length; #IMPLIED
	arrow-start-len %length; #IMPLIED
	arrow-end-len %length; #IMPLIED
	arrow-width %length; #IMPLIED
	bracket-text-gap %length; #IMPLIED
	bracket-line-gap %length; #IMPLIED
	bracket-line-len %length; #IMPLIED
	bracket-line-wid %length; #IMPLIED
	bracket-color %color; #IMPLIED
	plus-text CDATA #IMPLIED
	plus-font IDREF #IMPLIED
	plus-bracket CDATA #IMPLIED
	minus-text CDATA #IMPLIED
	minus-font IDREF #IMPLIED
	minus-bracket CDATA #IMPLIED
	center-text CDATA #IMPLIED
	center-font IDREF #IMPLIED
	start-type CDATA #IMPLIED
	end-type CDATA #IMPLIED
>
<!ELEMENT Blowup-widget (Object?, Resource*, %links;)>
<!ATTLIST Blowup-widget
	%attrs;
	featureref IDREF #IMPLIED
	startpos %integer; #REQUIRED
	endpos %integer; #REQUIRED
	on-plus %yesorno; #IMPLIED
	line-width %linewidth; #IMPLIED
	interior-gap %length; #IMPLIED
	fill-pattern (clear | horiz | vert | fdiag | bdiag | cross | diagcross | solid) #IMPLIED
	border-color %color; #IMPLIED
	fill-fg-color %color; #IMPLIED
	fill-bg-color %color; #IMPLIED
	bracket-text-gap %length; #IMPLIED
	bracket-line-gap %length; #IMPLIED
	bracket-line-len %length; #IMPLIED
	bracket-line-wid %length; #IMPLIED
	bracket-color %color; #IMPLIED
	cut-thickness %length; #IMPLIED
	plus-text CDATA #IMPLIED
	plus-font IDREF #IMPLIED
	minus-text CDATA #IMPLIED
	minus-color %color; #IMPLIED
	inside-text CDATA #IMPLIED
	inside-font IDREF #IMPLIED
	outside-text CDATA #IMPLIED
	outside-font IDREF #IMPLIED
>
<!ELEMENT Aligned-chart-widget (Chart, Quantifier?, Object?, Resource*, %links;)>
<!ATTLIST Aligned-chart-widget
	%attrs;
	featureref IDREF #IMPLIED
	full-only %yesorno; #IMPLIED
	min-points %integer; #IMPLIED
	field-number %integer; #IMPLIED
	startpos %integer; #REQUIRED
	endpos %integer; #REQUIRED
	min-offset %length; #REQUIRED
	max-offset %length; #REQUIRED
	on-plus %yesorno; #IMPLIED
	min-data %real; #REQUIRED
	max-data %real; #REQUIRED
	dec-places %integer; #IMPLIED
	show-y-axis %yesorno; #IMPLIED
	histogram %yesorno; #IMPLIED
	line-width %linewidth; #IMPLIED
	line-color %color; #IMPLIED
	caption CDATA #IMPLIED
	caption-font IDREF #IMPLIED
	data-font IDREF #IMPLIED
	standard-height %yesorno; #IMPLIED
>
<!ENTITY % seqdisplaywidgets "(Point-widget|Point-group-widget|
Interval-widget|Blowup-widget|
View-axis-widget|View-line-widget|
Aligned-chart-widget)*">
<!-- ************************************************************* -->
<!--                    View and View-related Elements             -->
<!-- ************************************************************* -->
<!-- ************************************************************* -->
<!--                               View                            -->
<!-- ************************************************************* -->
<!ELEMENT View (Numbering?, Margin?, %seqdisplaywidgets;, Object?, Resource*, %links;)>
<!ATTLIST View
	%attrs;
	seqref IDREF #REQUIRED
	histref IDREF #IMPLIED
	title1 CDATA #IMPLIED
	title1-font IDREF #IMPLIED
	title2 CDATA #IMPLIED
	title2-font IDREF #IMPLIED
	startpos %integer; #IMPLIED
	endpos %integer; #IMPLIED
>
<!-- ************************************************************* -->
<!--                         Feature-histogram-widget              -->
<!-- ************************************************************* -->
<!ELEMENT Feature-histogram-widget (Coord, Object?, Resource*, %links;)>
<!ATTLIST Feature-histogram-widget
	%attrs;
	viewref IDREF #REQUIRED
	caption CDATA #IMPLIED
	capt-font IDREF #IMPLIED
	numb-font IDREF #IMPLIED
	features-histogram %integer; #IMPLIED
	feature-position %integer; #IMPLIED
	nbins %integer; #IMPLIED
	height-per-bin %length; #IMPLIED
	line-width %linewidth; #IMPLIED
	bin-width %length; #IMPLIED
	line-color %color; #IMPLIED
	fill-bins %yesorno; #IMPLIED
	maximum-height %length; #IMPLIED
	auto-fit %yesorno; #IMPLIED
>
<!-- ************************************************************* -->
<!--                           View-master                         -->
<!-- ************************************************************* -->
<!ELEMENT View-master-widget (Coord, Object?, Resource*, %links;)>
<!ATTLIST View-master-widget
	views IDREFS #IMPLIED
	width %length; #IMPLIED
	height %length; #IMPLIED
	outerwidth %linewidth; #IMPLIED
	outerborder %color; #IMPLIED
	outerfill %color; #IMPLIED
	innerwidth %linewidth; #IMPLIED
	innerborder %color; #IMPLIED
	innerfill %color; #IMPLIED
	shapeborder %color; #IMPLIED
	shapefill %color; #IMPLIED
	disabledborder %color; #IMPLIED
	disabledfill %color; #IMPLIED
	shape (circular | horizontal | vertical) #IMPLIED
	hcenter %length; #IMPLIED
	vcenter %length; #IMPLIED
	hoffset %length; #IMPLIED
	voffset %length; #IMPLIED
	numviews %integer; #IMPLIED
	linear-length %length; #IMPLIED
	circular-diam %length; #IMPLIED
>
<!-- ************************************************************* -->
<!--                            Sequence-viewer                    -->
<!-- ************************************************************* -->
<!--      Sequence-viewer controls display in a separate viewer    -->
<!ELEMENT Class-key EMPTY>
<!ATTLIST Class-key
	key-title CDATA #REQUIRED
	key-class CDATA #REQUIRED
	border-color %color; #IMPLIED
	fill-color %color; #IMPLIED
	row %integer; #IMPLIED
	enabled %yesorno; #IMPLIED
	set-number %integer; #IMPLIED
>
<!ELEMENT Sequence-viewer (Class-key*, Object?, Resource*, %links;)>
<!ATTLIST Sequence-viewer
	%attrs;
	refseq IDREF #IMPLIED
	maximize-window %yesorno; #IMPLIED
	complete-seq %yesorno; #IMPLIED
	view-start %integer; #IMPLIED
	view-end %integer; #IMPLIED
	fit-to-window %yesorno; #IMPLIED
	spacing %integer; #IMPLIED
	bases-per-line %integer; #IMPLIED
	bases-per-window %integer; #IMPLIED
	int-pos %integer; #IMPLIED
	interval-height-min %integer; #IMPLIED
	interval-height-max %integer; #IMPLIED
	font-pos %integer; #IMPLIED
	font-size-min %integer; #IMPLIED
	font-size-max %integer; #IMPLIED
	show-sites %yesorno; #IMPLIED
	sites-as-ints %yesorno; #IMPLIED
	sites-not-full %yesorno; #IMPLIED
	sites-by-pct %yesorno; #IMPLIED
	sites-percent %integer; #IMPLIED
	interval-pos %integer; #IMPLIED
	interval-overlap %yesorno; #IMPLIED
	interval-separate %yesorno; #IMPLIED
	interval-by-width %yesorno; #IMPLIED
	int-pixels %integer; #IMPLIED
	int-as-point %yesorno; #IMPLIED
	plus-strand %yesorno; #IMPLIED
	minus-strand %yesorno; #IMPLIED
	frame %yesorno; #IMPLIED
	show-point-titles %yesorno; #IMPLIED
	show-interval-titles %yesorno; #IMPLIED
	interval-titles-above %yesorno; #IMPLIED
	interval-title-once %yesorno; #IMPLIED
	title-length %integer; #IMPLIED
	show-key %yesorno; #IMPLIED
	feature-histogram %integer; #IMPLIED
	feature-position %integer; #IMPLIED
	density-per-window %yesorno; #IMPLIED
	density-method %integer; #IMPLIED
	density-threshold %integer; #IMPLIED
	nbins %integer; #IMPLIED
	pixels-per-countX1000 %integer; #IMPLIED
	max-histo-height %integer; #IMPLIED
	auto-fit-histogram %yesorno; #IMPLIED
>
<!-- ************************************************************* -->
<!--               Other Sequence-related Display Objects         -->
<!-- ************************************************************* -->
<!-- ************************************************************* -->
<!--                             Gel-widget                        -->
<!-- ************************************************************* -->
<!ELEMENT Gel-widget (Coord, Border?, Object?, Resource*, %links;)>
<!--        gel-widget simulates gel electrophoresis display       -->
<!--        using data from Digest-set elements                    -->
<!ATTLIST Gel-widget
	%attrs;
	digests IDREFS #REQUIRED
	title-font IDREF #IMPLIED
	min-length %integer; #IMPLIED
	max-length %integer; #IMPLIED
	min-label %integer; #IMPLIED
	scale-factor %real; #IMPLIED
	label-decimals %integer; #IMPLIED
	label-ratio %real; #IMPLIED
	label-font IDREF #IMPLIED
	gel-length %length; #IMPLIED
	lane-width %length; #IMPLIED
	lane-gap %length; #IMPLIED
	lane-thick %linewidth; #IMPLIED
	lane-color %color; #IMPLIED
	band-prop %yesorno; #IMPLIED
	band-thick %linewidth; #IMPLIED
	band-low %linewidth; #IMPLIED
	band-color %color; #IMPLIED
	confusion %linewidth; #IMPLIED
	confusion-color %color; #IMPLIED
	plot-big %yesorno; #IMPLIED
	use-key %yesorno; #IMPLIED
	show-band-on-seq %yesorno; #IMPLIED
>
<!-- ************************************************************* -->
<!--                            Seq-Data-widget                    -->
<!-- ************************************************************* -->
<!ELEMENT Seq-data-widget (Coord, Border?, Seq-data?, Object?, Resource*, %links;)>
<!ATTLIST Seq-data-widget
	%attrs;
	featureref IDREF #IMPLIED
	seqref IDREF #IMPLIED
	startpos %integer; #REQUIRED
	length %integer; #REQUIRED
	caption CDATA #IMPLIED
	seq-font IDREF #IMPLIED
	caption-font IDREF #IMPLIED
	bases-per-line %integer; #IMPLIED
	number-bases %yesorno; #IMPLIED
	space-blocks %yesorno; #IMPLIED
	double-stranded %yesorno; #IMPLIED
	translate-dna (yes | no | only) #IMPLIED
	translate-start %integer; #IMPLIED
	translate-length %integer; #IMPLIED
	source %url; #IMPLIED
	seq-len %integer; #IMPLIED
	is-protein %yesorno; #IMPLIED
>
<!-- ************************************************************* -->
<!--                 Sequence-Independent Display widgets          -->
<!-- ************************************************************* -->
<!ELEMENT Popup-text-widget (#PCDATA)>
<!ATTLIST Popup-text-widget
	%attrs;
>
<!ELEMENT Caption-widget (Coord, Resource*, %links;)>
<!ATTLIST Caption-widget
	%attrs;
	text CDATA #IMPLIED
	font IDREF #IMPLIED
	orientation (horizontal | down | angled) #IMPLIED
	angle %integer; #IMPLIED
	border %yesorno; #IMPLIED
	border-gutter %length; #IMPLIED
	border-width %length; #IMPLIED
	border-color %color; #IMPLIED
	wordwrap %yesorno; #IMPLIED
	wrap-length %length; #IMPLIED
	align (left | center | right) #IMPLIED
>
<!ELEMENT Line-pointer-widget (Coord+, Resource*, %links;)>
<!ATTLIST Line-pointer-widget
	%attrs;
	line-style %linestyle; #IMPLIED
	line-width %linewidth; #IMPLIED
	line-color %color; #IMPLIED
	use-start-arrow %yesorno; #IMPLIED
	start-arrow-length %length; #IMPLIED
	start-arrow-width %length; #IMPLIED
	use-end-arrow %yesorno; #IMPLIED
	end-arrow-length %length; #IMPLIED
	end-arrow-width %length; #IMPLIED
	caption CDATA #IMPLIED
	font IDREF #IMPLIED
	above-line %yesorno; #IMPLIED
>
<!ELEMENT Shape-widget (Coord, Resource*, %links;)>
<!ATTLIST Shape-widget
	%attrs;
	height %length; #IMPLIED
	width %length; #IMPLIED
	filled %yesorno; #IMPLIED
	line-width %linewidth; #IMPLIED
	shape %displayshape; #IMPLIED
	color %color; #IMPLIED
>
<!ELEMENT File-widget (Coord?, Border?, Image-map?, Object?, Resource*, %links;)>
<!ATTLIST File-widget
	%attrs;
	own-window %yesorno; #IMPLIED
	caption CDATA #IMPLIED
	height %length; #IMPLIED
	width %length; #IMPLIED
	text-font IDREF #IMPLIED
	type CDATA #IMPLIED
	source %url; #REQUIRED
>
<!ELEMENT Table-column EMPTY>
<!ATTLIST Table-column
	colnum %integer; #REQUIRED
	colwid %length; #IMPLIED
	align (left | center | right) "right"
>
<!ELEMENT Table-widget (Coord?, Border?, Table-column+, Object?, Resource*, %links;)>
<!ATTLIST Table-widget
	%attrs;
	own-window %yesorno; #IMPLIED
	own-in-grid %yesorno; #IMPLIED
	tableid IDREF #REQUIRED
	rownums CDATA #IMPLIED
	title-font IDREF #IMPLIED
	header-font IDREF #IMPLIED
	cell-font IDREF #IMPLIED
	row-height %length; #IMPLIED
	rules %trules; #IMPLIED
	rule-color %color; #IMPLIED
	rule-width %linewidth; #IMPLIED
	cellspacing %length; #IMPLIED
	cellpadding %length; #IMPLIED
>
<!ELEMENT Text-key-item EMPTY>
<!ATTLIST Text-key-item
	key CDATA #REQUIRED
	explanation CDATA #REQUIRED
>
<!ELEMENT Text-key-widget (Coord, Border?, Text-key-item+, Resource*, %links;)>
<!ATTLIST Text-key-widget
	%attrs;
	key-font IDREF #IMPLIED
	explanation-font IDREF #IMPLIED
	key-width %length; #IMPLIED
	item-gap %length; #IMPLIED
>
<!ELEMENT Fill-key-widget (Coord, Border?, Resource*, %links;)>
<!ATTLIST Fill-key-widget
	%attrs;
	font IDREF #IMPLIED
	pattern-width %length; #IMPLIED
	pattern-height %length; #IMPLIED
	line-width %linewidth; #IMPLIED
	pattern-gap %length; #IMPLIED
	patterns CDATA #IMPLIED
	fore-colors CDATA #IMPLIED
	back-colors CDATA #IMPLIED
	explanations CDATA #IMPLIED
>
<!ELEMENT Symbol-key-widget (Coord, Border?, Resource*, %links;)>
<!ATTLIST Symbol-key-widget
	%attrs;
	do-substitute %yesorno; #IMPLIED
	font IDREF #IMPLIED
	size %length; #IMPLIED
	line-width %linewidth; #IMPLIED
	color %color; #IMPLIED
	open-circle CDATA #IMPLIED
	closed-circle CDATA #IMPLIED
	open-square CDATA #IMPLIED
	closed-square CDATA #IMPLIED
	triangle CDATA #IMPLIED
	suppress CDATA #IMPLIED
>
<!ELEMENT Axis-widget (Coord, (X-axis | Y-axis))>
<!-- display the axis-widget beginning at Coord.X and Coord.Y -->
<!ATTLIST Axis-widget
	%attrs;
	caption CDATA #IMPLIED
	capt-font IDREF #IMPLIED
	ascending %yesorno; #IMPLIED
	topright %yesorno; #IMPLIED
	axis-length %length; #REQUIRED
	start %integer; #REQUIRED
	end %integer; #REQUIRED
	num-divisions %integer; #IMPLIED
	show-first %yesorno; #IMPLIED
	zero-as-1 %yesorno; #IMPLIED
	labels CDATA #IMPLIED
>
<!-- ************************************************************* -->
<!--                    Chart Widget and Related Elements          -->
<!-- ************************************************************* -->
<!ELEMENT X-chart-axis EMPTY>
<!ATTLIST X-chart-axis
	scale-automatic %yesorno; #IMPLIED
	lower-limit %real; #IMPLIED
	upper-limit %real; #IMPLIED
	display-mode (decimal-places | best-fit | log | suppressed) #IMPLIED
	dec-places %integer; #IMPLIED
	grid (none | at-zero | at-ticks) #IMPLIED
>
<!ELEMENT Y-chart-axis EMPTY>
<!ATTLIST Y-chart-axis
	scale-automatic %yesorno; #IMPLIED
	lower-limit %real; #IMPLIED
	upper-limit %real; #IMPLIED
	display-mode (decimal-places | best-fit | log | suppressed) #IMPLIED
	dec-places %integer; #IMPLIED
	grid (none | at-zero | at-ticks) #IMPLIED
>
<!ELEMENT Chart-page EMPTY>
<!ATTLIST Chart-page
	left %length; #IMPLIED
	top %length; #IMPLIED
	width %length; #IMPLIED
	length %length; #IMPLIED
	portrait %yesorno; #IMPLIED
>
<!ELEMENT Chart-screen-display EMPTY>
<!ATTLIST Chart-screen-display
	monochrome %yesorno; #IMPLIED
	text-font-size %integer; #IMPLIED
	text-font-bold %yesorno; #IMPLIED
	numb-font-size %integer; #IMPLIED
	numb-font-bold %yesorno; #IMPLIED
	plot-thickness %linewidth; #IMPLIED
	frame-thickness %linewidth; #IMPLIED
	text-color %color; #IMPLIED
	numb-color %color; #IMPLIED
	plot-color %color; #IMPLIED
	frame-color %color; #IMPLIED
	plot-background-color %color; #IMPLIED
	frame-background-color %color; #IMPLIED
	symbol-size %length; #IMPLIED
>
<!ELEMENT Chart-print-display EMPTY>
<!ATTLIST Chart-print-display
	monochrome %yesorno; #IMPLIED
	text-font-size %integer; #IMPLIED
	text-font-bold %yesorno; #IMPLIED
	numb-font-size %integer; #IMPLIED
	numb-font-bold %yesorno; #IMPLIED
	plot-thickness %linewidth; #IMPLIED
	frame-thickness %linewidth; #IMPLIED
	text-color %color; #IMPLIED
	numb-color %color; #IMPLIED
	plot-color %color; #IMPLIED
	frame-color %color; #IMPLIED
	plot-background-color %color; #IMPLIED
	frame-background-color %color; #IMPLIED
	symbol-size %length; #IMPLIED
>
<!ELEMENT Chart-data EMPTY>
<!ATTLIST Chart-data
	setnum %integer; #REQUIRED
	symbol (nosymbol | plus | ex | opencircle | filledcircle | opensquare | filledsquare) #IMPLIED
	line-format (none | line-only | symbol-only | both | err-bar) #IMPLIED
	line-color %color; #IMPLIED
	fill-color %color; #IMPLIED
	do-fill %yesorno; #IMPLIED
	fill-pattern (clear | horiz | vert | fdiag | bdiag | cross | diagcross | solid) #IMPLIED
	legend CDATA #IMPLIED
	drop-left CDATA #IMPLIED
	drop-right CDATA #IMPLIED
	colrownum %integer; #IMPLIED
	values CDATA #IMPLIED
>
<!ELEMENT Chart-widget (Coord?, X-chart-axis?, Y-chart-axis?, Chart-page?, Chart-screen-display?, Chart-print-display?, Chart-data*, Object?, Resource*, %links;)>
<!ATTLIST Chart-widget
	%attrs;
	own-window %yesorno; #IMPLIED
	width %length; #IMPLIED
	length %length; #IMPLIED
	chart-type (xy | multi-xy | box-plot | bar | histogram | line) #IMPLIED
	text-font IDREF #IMPLIED
	numb-font IDREF #IMPLIED
	title-1 CDATA #IMPLIED
	title-2 CDATA #IMPLIED
	x-title CDATA #IMPLIED
	y-title CDATA #IMPLIED
	legend-pos (below | upper-left | upper-right | lower-left | lower-right) #IMPLIED
	presort %yesorno; #IMPLIED
	x-no-zero %yesorno; #IMPLIED
	format CDATA #IMPLIED
	source %url; #IMPLIED
	tableid IDREF #IMPLIED
	bycolumn %yesorno; #IMPLIED
	column-starts CDATA #IMPLIED
	column-widths CDATA #IMPLIED
	header-count %integer; #IMPLIED
>
<!ENTITY % pagedisplaywidgets "(Popup-text-widget|Sequence-viewer|
Feature-histogram-widget|Caption-widget|Line-pointer-widget|
Shape-widget|Table-widget|File-widget|Gel-widget|Axis-widget|
Text-key-widget|Fill-key-widget|Symbol-key-widget|
Seq-data-widget|Chart-widget|View-master-widget|Network-display-widget)">
<!-- ************************************************************* -->
<!--                                Page                           -->
<!-- ************************************************************* -->
<!ELEMENT Page (Screen?, Paper?, Border?, (%pagedisplaywidgets; | %setwidgets; | View | Resource | %links;)*, Object?)>
<!ATTLIST Page
	%attrs;
>