73 lines
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2 KiB
HTML
73 lines
No EOL
2 KiB
HTML
<!DOCTYPE HTML>
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<title>MapLoc</title>
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<h3>MapLoc</h3><pre>Defined in file <a href="docsum.asn.html">docsum.asn</a>
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C++ class: <a href="../doxyhtml/classCMapLoc.html">CMapLoc</a>
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MapLoc ::= SEQUENCE {
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attlist SET {
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--beginning of variation as feature on
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-- contig
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asnFrom INTEGER,
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--end position of variation as feature on
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-- contig
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asnTo INTEGER,
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--defines the seq-loc symbol if asn_from !=
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-- asn_to
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locType ENUMERATED {
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insertion (1),
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exact (2),
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deletion (3),
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range-ins (4),
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range-exact (5),
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range-del (6)
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},
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alnQuality REAL OPTIONAL, --alignment qualiity
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--orientation of refSNP sequence to contig
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-- sequence
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orient ENUMERATED {
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forward (1),
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reverse (2)
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} OPTIONAL,
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--chromosome position as integer for
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-- sorting
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physMapInt INTEGER OPTIONAL,
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--nearest aligned position in 5' flanking sequence of
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-- snp
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leftFlankNeighborPos INTEGER OPTIONAL,
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rightFlankNeighborPos INTEGER OPTIONAL, --nearest aligned position in 3' flanking sequence of snp
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--nearest aligned position in 5' contig alignment of
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-- snp
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leftContigNeighborPos INTEGER OPTIONAL,
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--nearest aligned position in 3' contig alignment of
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-- snp
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rightContigNeighborPos INTEGER OPTIONAL,
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--number of Mismatched positions in this
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-- alignment
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numberOfMismatches INTEGER OPTIONAL,
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numberOfDeletions INTEGER OPTIONAL, --number of deletions in this alignment
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numberOfInsertions INTEGER OPTIONAL, --number of insetions in this alignment
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refAllele VisibleString OPTIONAL
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},
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fxnSet SEQUENCE OF <a href="FxnSet.html">FxnSet</a> OPTIONAL
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}</pre>
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