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<h3>MapLoc</h3><pre>Defined in file <a href="docsum.asn.html">docsum.asn</a>
C++ class: <a href="../doxyhtml/classCMapLoc.html">CMapLoc</a>
MapLoc ::= SEQUENCE {
attlist SET {
--beginning of variation as feature on
-- contig
asnFrom INTEGER,
--end position of variation as feature on
-- contig
asnTo INTEGER,
--defines the seq-loc symbol if asn_from !=
-- asn_to
locType ENUMERATED {
insertion (1),
exact (2),
deletion (3),
range-ins (4),
range-exact (5),
range-del (6)
},
alnQuality REAL OPTIONAL, --alignment qualiity
--orientation of refSNP sequence to contig
-- sequence
orient ENUMERATED {
forward (1),
reverse (2)
} OPTIONAL,
--chromosome position as integer for
-- sorting
physMapInt INTEGER OPTIONAL,
--nearest aligned position in 5' flanking sequence of
-- snp
leftFlankNeighborPos INTEGER OPTIONAL,
rightFlankNeighborPos INTEGER OPTIONAL, --nearest aligned position in 3' flanking sequence of snp
--nearest aligned position in 5' contig alignment of
-- snp
leftContigNeighborPos INTEGER OPTIONAL,
--nearest aligned position in 3' contig alignment of
-- snp
rightContigNeighborPos INTEGER OPTIONAL,
--number of Mismatched positions in this
-- alignment
numberOfMismatches INTEGER OPTIONAL,
numberOfDeletions INTEGER OPTIONAL, --number of deletions in this alignment
numberOfInsertions INTEGER OPTIONAL, --number of insetions in this alignment
refAllele VisibleString OPTIONAL
},
fxnSet SEQUENCE OF <a href="FxnSet.html">FxnSet</a> OPTIONAL
}</pre>
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