Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009490.1 Kokia drynarioides strain JFW-HI SEQ_124199, 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: 10963
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27


Found at i:756 original size:59 final size:58

Alignment explanation


    Indices: 566--1097  Score: 730
    Period size: 59  Copynumber: 9.1  Consensus size: 58

        556 TAACTTTCCG

                          *                  **       *                
        566 AAAATTACCATTTTGCCCCTGAACTTCCAAAAAAACCATTTTGGACCCCGAACCTTCTA
          1 AAAATTACCATTTTACCCC-GAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

                                 *             * *         *           
        625 AAAATTACCATTTTACCCCAGGACTTCCAAAAATCTCGTTTTTGA--TCGAACCTTCTA
          1 AAAATTACCATTTTACCCC-GAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

                                                                       
        682 AAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA
          1 AAAATTACCATTTTACCC-CGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

                                                                  *     
        741 AAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGA-CCCGAAACATTCTA
          1 AAAATTACCATTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCCG-AACCTTCTA

                                *             *                        
        800 AAAATTACCATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCCGAACCTTCTA
          1 AAAATTACCATTTTACCC-CGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

                                *  *           *          *            
        859 AAAATTACCATTTTACCCCTAAAATTCCAAAAATCTCATTTTTGACTCCGAACCTTCTA
          1 AAAATTACCATTTTACCCC-GAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

                       *        *           *                          
        918 AAAATTACCATCTTACCCCCAAACTTCCAAAAGTCCCATTTTTGACCCCGAACCTTCTA
          1 AAAATTACCATTTTA-CCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

                           *           *                   *           *
        977 AAAATTACCATTTTGCCCCCGAACTTCTAAAAATCCCATTTTTGACCTCGAACCTT-TCG
          1 AAAATTACCATTTT-ACCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCT-A

                                                          *            
       1036 AAAATTACCATTTTACCCCTGAACTTCCAAAAATCCCATTTTTGACTCCGAACCTTCTA
          1 AAAATTACCATTTTACCCC-GAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

               
       1095 AAA
          1 AAA

       1098 CTATCATTTT


Statistics
Matches: 422,  Mismatches: 38, Indels: 26
        0.87            0.08        0.05

Matches are distributed among these distances:
  57   51  0.12
  58   14  0.03
  59  345  0.82
  60   12  0.03

ACGTcount: A:0.33, C:0.30, G:0.06, T:0.31


Consensus pattern (58 bp):   
AAAATTACCATTTTACCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACCTTCTA

Found at i:1107 original size:29 final size:29

Alignment explanation


    Indices: 566--1114  Score: 339
    Period size: 29  Copynumber: 18.7  Consensus size: 29

        556 TAACTTTCCG

                                         *
        566 AAAATTACCATTTTG-CCCCTGAA-CTTCC
          1 AAAATTACCATTTTGACCCC-GAACCTTCT

                **                        
        594 AAAAAAACCATTTTGGACCCCGAACCTTCT
          1 AAAATTACCATTTT-GACCCCGAACCTTCT

                                   *       *
        624 AAAAATTACCATTTT-ACCCCAGGA-CTTCCA
          1 -AAAATTACCATTTTGACCCC-GAACCTT-CT

                     **        *          
        654 AAAATCT-CGTTTTTGA--TCGAACCTTCT
          1 AAAAT-TACCATTTTGACCCCGAACCTTCT

                                          *
        681 AAAAATTACCATTTT-ACCCTCGAA-CTTCC
          1 -AAAATTACCATTTTGACCC-CGAACCTTCT

                * *                       
        710 AAAAATCCCATTTTTGACCCCGAACCTTCT
          1 AAAATTACCA-TTTTGACCCCGAACCTTCT

                                          *
        740 AAAAATTACCATTTT-ACCCCCGAA-CTTCC
          1 -AAAATTACCATTTTGA-CCCCGAACCTTCT

                * *                   *    
        769 AAAAATCCCATTTTTGA-CCCGAAACATTCT
          1 AAAATTACCA-TTTTGACCCCG-AACCTTCT

                                     *     *
        799 AAAAATTACCATTTT-ACCCTC-AAACTTCCA
          1 -AAAATTACCATTTTGACCC-CGAACCTT-CT

                                          
        829 AAAATT-CCATTTTTGACCCCGAACCTTCT
          1 AAAATTACCA-TTTTGACCCCGAACCTTCT

                                 *  **   *
        858 AAAAATTACCATTTT-ACCCCTAAAATTCC
          1 -AAAATTACCATTTTGACCCCGAACCTTCT

                *              *           
        887 AAAAAT-CTCATTTTTGACTCCGAACCTTCT
          1 AAAATTAC-CA-TTTTGACCCCGAACCTTCT

                        *        *  *    *
        917 AAAAATTACCATCTT-ACCCCCAAACTTCC
          1 -AAAATTACCATTTTGACCCCGAACCTTCT

                * *                       
        946 AAAAGTCCCATTTTTGACCCCGAACCTTCT
          1 AAAATTACCA-TTTTGACCCCGAACCTTCT

                            *             
        976 AAAAATTACCATTTTGCCCCCGAA-CTTCT
          1 -AAAATTACCATTTTGACCCCGAACCTTCT

                * *            *          *
       1005 AAAAATCCCATTTTTGACCTCGAACCTTTCG
          1 AAAATTACCA-TTTTGACCCCGAACC-TTCT

                                         *
       1036 AAAATTACCATTTT-ACCCCTGAA-CTTCC
          1 AAAATTACCATTTTGACCCC-GAACCTTCT

                * *           *           
       1064 AAAAATCCCATTTTTGACTCCGAACCTTCT
          1 AAAATTACCA-TTTTGACCCCGAACCTTCT

                *  *       *     
       1094 AAAACTATCATTTTGCCCCCG
          1 AAAATTACCATTTTGACCCCG

       1115 TGTATCCGAA


Statistics
Matches: 398,  Mismatches: 76, Indels: 93
        0.70            0.13        0.16

Matches are distributed among these distances:
  27    6  0.02
  28   83  0.21
  29  126  0.32
  30  124  0.31
  31   58  0.15
  32    1  0.00

ACGTcount: A:0.33, C:0.31, G:0.06, T:0.31


Consensus pattern (29 bp):   
AAAATTACCATTTTGACCCCGAACCTTCT

Done.