Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004780.1 Kokia drynarioides strain JFW-HI SEQ_118394, 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, 705

Length: 1176
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37


Found at i:577 original size:29 final size:29

Alignment explanation


    Indices: 542--1000  Score: 359
    Period size: 29  Copynumber: 15.7  Consensus size: 29

        532 TACTAAATTG

                      * *                
        542 TCCAAAAATTACGTTTTTACCCCGAAACT
          1 TCCAAAAATTCCATTTTTACCCCGAAACT

             *       *              *     
        571 TTCAAAAATCCCATTTTTAACCCCAAAACT
          1 TCCAAAAATTCCATTTTT-ACCCCGAAACT

            *                             
        601 CCCAAAAATTCCATTTTTACCCTCG-AACT
          1 TCCAAAAATTCCATTTTTACCC-CGAAACT

                     *             **     
        630 TCCAAAAATCCCATTTTTGACCCTAAAACT
          1 TCCAAAAATTCCATTTTT-ACCCCGAAACT

            *    *                  *     
        660 CCCAAGAATTCCATTTTTACCCCCCAAACT
          1 TCCAAAAATTCCATTTTTA-CCCCGAAACT

                     *       *           
        690 TCCAAAAATCCCATTTTAACCCC-AAACT
          1 TCCAAAAATTCCATTTTTACCCCGAAACT

            *          *                  
        718 CCCAAAAATTCTATTTTTACCCCCG-AACT
          1 TCCAAAAATTCCATTTTTA-CCCCGAAACT

             **      *       *     *     
        747 TTTAAAAATCCCATTTTGACCCCAAAACT
          1 TCCAAAAATTCCATTTTTACCCCGAAACT

            *    *                        
        776 CCCAAGAATTCCATTTTTACCCTCG-AACT
          1 TCCAAAAATTCCATTTTTACCC-CGAAACT

             *       *             **     
        805 TTCAAAAATCCCATTTTTGACCCAAAAACT
          1 TCCAAAAATTCCATTTTT-ACCCCGAAACT

                                           
        835 TCCAAAAAATT-CATTTTTACCCCCG-AACT
          1 TCC-AAAAATTCCATTTTTA-CCCCGAAACT

             *                       *     
        864 TTCAAAAA-TCTCATTTTTGACCCCAAAAC-
          1 TCCAAAAATTC-CATTTTT-ACCCCGAAACT

                * *                    *   
        893 TCCTTATAATTCCATTTTTACCCCCGACA-T
          1 TCC-AAAAATTCCATTTTTA-CCCCGAAACT

                               *     *      
        923 TCCAAAAA-TCTCATTTTCGA-CCCTAAATCT
          1 TCCAAAAATTC-CATTTT-TACCCCGAAA-CT

                                          
        953 TCCAAAAATTCCATTTTTACCCTCG-AACT
          1 TCCAAAAATTCCATTTTTACCC-CGAAACT

                                
        982 TCC-AAAATTCCCATTTTTA
          1 TCCAAAAATT-CCATTTTTA

       1001 ACCTCGAATT


Statistics
Matches: 337,  Mismatches: 64, Indels: 58
        0.73            0.14        0.13

Matches are distributed among these distances:
  27    1  0.00
  28   42  0.12
  29  147  0.44
  30  136  0.40
  31   11  0.03

ACGTcount: A:0.34, C:0.31, G:0.03, T:0.32


Consensus pattern (29 bp):   
TCCAAAAATTCCATTTTTACCCCGAAACT

Found at i:1021 original size:59 final size:59

Alignment explanation


    Indices: 543--999  Score: 575
    Period size: 59  Copynumber: 7.8  Consensus size: 59

        533 ACTAAATTGT

                     * *                  *                *            
        543 CCAAAAATTACGTTTTTA-CCCCGAAACTTTCAAAAATCCCATTTTTAACCCCAAAACTC
          1 CCAAAAATTCCATTTTTACCCCCG-AACTTCCAAAAATCCCATTTTTGACCCCAAAACTC

                                 *                             *       
        602 CCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCTAAAACTC
          1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTC

                *                   *                      *            
        661 CCAAGAATTCCATTTTTACCCCCCAAACTTCCAAAAATCCCA-TTTTAACCCC-AAACTC
          1 CCAAAAATTCCATTTTTA-CCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTC

                      *                  **                            
        719 CCAAAAATTCTATTTTTACCCCCGAACTTTTAAAAATCCCA-TTTTGACCCCAAAACTC
          1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTC

                *                *       *                     *        
        777 CCAAGAATTCCATTTTTACCCTCGAACTTTCAAAAATCCCATTTTTGACCCAAAAACTTC
          1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAAC-TC

             *                           *        *                    
        837 CAAAAAATT-CATTTTTACCCCCGAACTTTCAAAAATCTCATTTTTGACCCCAAAACTC
          1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTC

             ** *                                  *      *     *   *  *
        895 CTTATAATTCCATTTTTACCCCCG-ACATTCCAAAAATCTCATTTTCGACCCTAAATCTT
          1 CCAAAAATTCCATTTTTACCCCCGAAC-TTCCAAAAATCCCATTTTTGACCCCAAAACTC

                                 *             *          
        954 CCAAAAATTCCATTTTTACCCTCGAACTTCCAAAATTCCCATTTTT
          1 CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTT

       1000 AACCTCGAAT


Statistics
Matches: 348,  Mismatches: 42, Indels: 16
        0.86            0.10        0.04

Matches are distributed among these distances:
  57   29  0.08
  58   75  0.22
  59  208  0.60
  60   36  0.10

ACGTcount: A:0.34, C:0.32, G:0.03, T:0.32


Consensus pattern (59 bp):   
CCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTC

Done.