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2 table repeatMasker
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3 "RepeatMasker .out record"
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4 (
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5 string chrom; "Genomic sequence name"
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6 uint chromStart; "Start in genomic sequence"
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7 uint chromEnd; "End in genomic sequence"
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8 string name; "Name of repeat"
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9 uint score; "always 0 place holder"
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10 char[1] strand; "Relative orientation + or -"
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11 uint swScore; "Smith Waterman alignment score"
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12 uint milliDiv; "Base mismatches in parts per thousand"
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13 uint milliDel; "Bases deleted in parts per thousand"
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14 uint milliIns; "Bases inserted in parts per thousand"
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15 int genoLeft; "-#bases after match in genomic sequence"
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16 string repClass; "Class of repeat"
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17 string repFamily; "Family of repeat"
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18 int repStart; "Start (if strand is +) or -#bases after match (if strand is -) in repeat sequence"
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19 uint repEnd; "End in repeat sequence"
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20 int repLeft; "-#bases after match (if strand is +) or start (if strand is -) in repeat sequence"
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21 )
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