MapLoc

Defined in file docsum.asn
C++ class: CMapLoc


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 FxnSet OPTIONAL
}