Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002103.1 Kokia drynarioides strain JFW-HI SEQ_114024, 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: 3693
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32


Found at i:564 original size:29 final size:29

Alignment explanation


    Indices: 523--724  Score: 165
    Period size: 29  Copynumber: 6.9  Consensus size: 29

        513 AAACTGTCTG

                  *            *  *      
        523 AAAATTACATTTTTACCCCCGAGCTTCCA
          1 AAAATTCCATTTTTACCCCAGAACTTCCA

                               * *        
        552 AAAATTCCATTTTTGACCCTAAAACTTCCA
          1 AAAATTCCATTTTT-ACCCCAGAACTTCCA

                 **             *        
        582 AAAATAACATTTTTACCCCAAAACTTCCA
          1 AAAATTCCATTTTTACCCCAGAACTTCCA

                *              *       * 
        611 AAAAATCCATTTTTACCCCTGAACTTCAA
          1 AAAATTCCATTTTTACCCCAGAACTTCCA

                          *  *       *   * 
        640 AAAATTCCATTTTCGACACC-GAAATTTCAA
          1 AAAATTCCATTTT-TACCCCAG-AACTTCCA

                                     **   
        670 AAAATTCCATTTTTACCCTC-GAACCACCA
          1 AAAATTCCATTTTTACCC-CAGAACTTCCA

               *   *             *    
        699 AAAGTTCTATTTTTTACCCCAAAACT
          1 AAAATTCCA-TTTTTACCCCAGAACT

        725 CTCGAAATTA


Statistics
Matches: 139,  Mismatches: 28, Indels: 11
        0.78            0.16        0.06

Matches are distributed among these distances:
  29   78  0.56
  30   61  0.44

ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31


Consensus pattern (29 bp):   
AAAATTCCATTTTTACCCCAGAACTTCCA

Found at i:620 original size:59 final size:57

Alignment explanation


    Indices: 523--688  Score: 172
    Period size: 59  Copynumber: 2.8  Consensus size: 57

        513 AAACTGTCTG

                               ** *          *                       * 
        523 AAAATTACATTTTTACCCCCGAGCTTCCAAAAATTCCATTTTTGACCCTAAAACTTCCA
          1 AAAATTACATTTTTACCCCAAAACTTCCAAAAAATCCATTTTT-ACCCT-AAACTTCAA

                 *                                           *        
        582 AAAATAACATTTTTACCCCAAAACTTCCAAAAAATCCATTTTTACCCCTGAACTTCAA
          1 AAAATTACATTTTTACCCCAAAACTTCCAAAAAATCCATTTTTA-CCCTAAACTTCAA

                  *       *  *  *      *                      
        640 AAAATTCCATTTTCGACACCGAAA-TTTCAAAAAATTCCATTTTTACCCT
          1 AAAATTACATTTT-TACCCCAAAACTTCCAAAAAA-TCCATTTTTACCCT

        689 CGAACCACCA


Statistics
Matches: 91,  Mismatches: 13, Indels: 7
        0.82            0.12        0.06

Matches are distributed among these distances:
  58   32  0.35
  59   59  0.65

ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32


Consensus pattern (57 bp):   
AAAATTACATTTTTACCCCAAAACTTCCAAAAAATCCATTTTTACCCTAAACTTCAA
Done.