Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012513.1 Kokia drynarioides strain JFW-HI SEQ_127518, 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: 2072
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35


Found at i:756 original size:59 final size:59

Alignment explanation


    Indices: 678--1062  Score: 484
    Period size: 59  Copynumber: 6.5  Consensus size: 59

        668 GGAGGTCCCT

                     *                                  *          *   *
        678 AAACTATCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATCCCA
          1 AAACT-TCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG

                                                                *     *
        738 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTAACCCCA
          1 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG

                                                                       
        797 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG
          1 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG

              *    *                   * *                         **  
        856 AACCTTCTTAAAATTACCATTTTACCCCCAAACTTCCAAAAATCCCA-TTTTGACATCG
          1 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG

                                               ***   *                 
        914 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTTTGAAAGTCCCATTTTTGACCCCG
          1 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG

                    *                  *        **   *  **      *  **  
        973 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCTGAAAGTCTTATTTTTAACATCG
          1 AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG

             *       *                *    
       1032 ACACTTCCAAAAAATTACCATTTTACTCTCG
          1 AAACTTCC-TAAAATTACCATTTTACCCTCG

       1063 GATGTTCGAA


Statistics
Matches: 290,  Mismatches: 33, Indels: 4
        0.89            0.10        0.01

Matches are distributed among these distances:
  58   48  0.17
  59  217  0.75
  60   25  0.09

ACGTcount: A:0.34, C:0.30, G:0.05, T:0.32


Consensus pattern (59 bp):   
AAACTTCCTAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCG

Found at i:1541 original size:96 final size:96

Alignment explanation


    Indices: 1428--1601  Score: 244
    Period size: 96  Copynumber: 1.8  Consensus size: 96

       1418 TAATATCCTT

                        *           *                     **                 
       1428 TTATTTCGAGTTTTGAAA-ATTTGTGCCTTAACTTACTAGGTGCAATTTTTCCTCAAATCAAAAT
          1 TTATTTCGAGTTCTGAAATA-TTGCGCCTTAACTTACTAGGTGCAACCTTTCCTCAAATCAAAAT

                *                           
       1492 AATCGAATACCCTTAATCGAGGCAATGTTTCC
         65 AATCAAATACCCTTAATCGAGGCAATGTTTCC

                                                                *         *  
       1524 TTATCTTCGA-TTCTGAAATATTGCGCCTTAACTTACTAGGTGCAACCTTTCTTCAAATCAAGAT
          1 TTAT-TTCGAGTTCTGAAATATTGCGCCTTAACTTACTAGGTGCAACCTTTCCTCAAATCAAAAT

                     *    
       1588 AATCAAATATCCTT
         65 AATCAAATACCCTT

       1602 TTCTTAAAGA


Statistics
Matches: 68,  Mismatches: 8, Indels: 4
        0.85            0.10        0.05

Matches are distributed among these distances:
  96   62  0.91
  97    6  0.09

ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37


Consensus pattern (96 bp):   
TTATTTCGAGTTCTGAAATATTGCGCCTTAACTTACTAGGTGCAACCTTTCCTCAAATCAAAATA
ATCAAATACCCTTAATCGAGGCAATGTTTCC
Done.