Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010047.1 Kokia drynarioides strain JFW-HI SEQ_124815, 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, 808

Length: 1348
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.37

Warning! 17 characters in sequence are not A, C, G, or T


Found at i:949 original size:29 final size:29

Alignment explanation


    Indices: 719--944  Score: 226
    Period size: 29  Copynumber: 7.8  Consensus size: 29

        709 NNNNNNNNNN

                                          
        719 TTCCAAAAATCCCA-TTTT-ACCCCTAAAC
          1 TTCCAAAAATCCCATTTTTAACCCC-AAAC

                                          
        747 TTCCAAAAATCCCA-TTTTAACCCCAAAAC
          1 TTCCAAAAATCCCATTTTTAACCCC-AAAC

              *       * *       *    *   
        776 TTTCAAAAATTCTATTTTTACCCCCGAAC
          1 TTCCAAAAATCCCATTTTTAACCCCAAAC

                   *               **     
        805 TTCCAAACATCCCATTTTTAACCGAAAACC
          1 TTCCAAAAATCCCATTTTTAACCCCAAA-C

                      *         *        
        835 TT-CAAAAATTCCATTTTTACCCCCAAAC
          1 TTCCAAAAATCCCATTTTTAACCCCAAAC

                          *          *    
        863 TTCCAAAAATCCCAATTTTAACCTCAAAAC
          1 TTCCAAAAATCCCATTTTTAACC-CCAAAC

              *       * *       *    *   
        893 TTTCAAAAATTCTATTTTTACCCCCGAAC
          1 TTCCAAAAATCCCATTTTTAACCCCAAAC

               *                   
        922 TTCTAAAAATCCCATTTTTAACC
          1 TTCCAAAAATCCCATTTTTAACC

        945 TCGAATTTTT


Statistics
Matches: 158,  Mismatches: 35, Indels: 9
        0.78            0.17        0.04

Matches are distributed among these distances:
  28   21  0.13
  29  102  0.65
  30   35  0.22

ACGTcount: A:0.36, C:0.31, G:0.01, T:0.31


Consensus pattern (29 bp):   
TTCCAAAAATCCCATTTTTAACCCCAAAC

Found at i:962 original size:59 final size:59

Alignment explanation


    Indices: 733--946  Score: 324
    Period size: 58  Copynumber: 3.7  Consensus size: 59

        723 AAAAATCCCA

                     *                           *                     
        733 TTTTACCCCTAAACTTCCAAAAATCCCA-TTTTAACCCCAAAACTTTCAAAAATTCTAT
          1 TTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCTCAAAACTTTCAAAAATTCTAT

                      *          *                *     *           *  
        791 TTTTACCCCCGAACTTCCAAACATCCCATTTTTAACC-GAAAACCTTCAAAAATTCCAT
          1 TTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCTCAAAACTTTCAAAAATTCTAT

                                        *                              
        849 TTTTACCCCCAAACTTCCAAAAATCCCAATTTTAACCTCAAAACTTTCAAAAATTCTAT
          1 TTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCTCAAAACTTTCAAAAATTCTAT

                      *      *                     
        908 TTTTACCCCCGAACTTCTAAAAATCCCATTTTTAACCTC
          1 TTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCTC

        947 GAATTTTTCT


Statistics
Matches: 139,  Mismatches: 15, Indels: 3
        0.89            0.10        0.02

Matches are distributed among these distances:
  58   77  0.55
  59   62  0.45

ACGTcount: A:0.36, C:0.31, G:0.01, T:0.32


Consensus pattern (59 bp):   
TTTTACCCCCAAACTTCCAAAAATCCCATTTTTAACCTCAAAACTTTCAAAAATTCTAT

Done.