Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012288.1 Corchorus capsularis cultivar CVL-1 contig12309, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 8413
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33


Found at i:136 original size:22 final size:21

Alignment explanation


    Indices: 92--141  Score: 73
    Period size: 21  Copynumber: 2.3  Consensus size: 21

         82 TAACCCGACT

                  *              
         92 CGACCCAAGAACCCGAGGAAC
          1 CGACCCGAGAACCCGAGGAAC

                        *         
        113 CGACCCGAGAACTCGATGGAAC
          1 CGACCCGAGAACCCGA-GGAAC

                   
        135 CGACCCG
          1 CGACCCG

        142 TCGGTTCTAA


Statistics
Matches: 26,  Mismatches: 2, Indels: 1
        0.90            0.07        0.03

Matches are distributed among these distances:
  21   14  0.54
  22   12  0.46

ACGTcount: A:0.32, C:0.38, G:0.26, T:0.04


Consensus pattern (21 bp):   
CGACCCGAGAACCCGAGGAAC

Found at i:791 original size:30 final size:30

Alignment explanation


    Indices: 757--821  Score: 96
    Period size: 30  Copynumber: 2.2  Consensus size: 30

        747 ATCCTAACTT

                         *                 
        757 TTGCTGCAGTGGAGTT-TGCAGGACCTTTGC
          1 TTGCTGCAGTGG-CTTGTGCAGGACCTTTGC

                                         *
        787 TTGCTGCAGTGGCTTGTGCAGGACCTTTGG
          1 TTGCTGCAGTGGCTTGTGCAGGACCTTTGC

                 
        817 TTGCT
          1 TTGCT

        822 TGATTTTGCT


Statistics
Matches: 32,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
  29    2  0.06
  30   30  0.94

ACGTcount: A:0.11, C:0.20, G:0.34, T:0.35


Consensus pattern (30 bp):   
TTGCTGCAGTGGCTTGTGCAGGACCTTTGC
Done.