Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008210.1 Kokia drynarioides strain JFW-HI SEQ_122874, 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, 798

Length: 1330
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24


Found at i:1064 original size:208 final size:208

Alignment explanation


    Indices: 677--1092  Score: 562
    Period size: 208  Copynumber: 2.0  Consensus size: 208

        667 AAAGTTCAAA

                *      * *                  *           *   **          *    
        677 AGGTTATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATATGAAT
          1 AGGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAATCAATAAAGCAAAGCTCAATACGAAT

                                                         *             * *   
        742 GAGACTTCAAACCCCATCTTCATAATAAGATATAGAGAAGTGGGTTAAAGCAATAAAGCGGTCAT
         66 GAGACTTCAAACCCCATCTTCATAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCAT

                                               **     *                  *  *
        807 CTTCCTGATGAGATACAAAAAAATGGACCAAATCCGTCATCTTGATGAGATACAAAGAAGTGGAT
        131 CTTCCTGATGAGATACAAAAAAATGGACCAAATCCACCATCTGGATGAGATACAAAGAAGTAGAC

            *            
        872 TAAATCAATGAAG
        196 GAAATCAATGAAG

                                  *     *     *                              
        885 AGGTCATCTTCCTAATGAGATATAGAGATGTAAATCAAATCAATAAAGCAAAGCTCAATACGAAT
          1 AGGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAATCAATAAAGCAAAGCTCAATACGAAT

                         *       * *  *                                      
        950 GAGACTTCAAACCTCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCAT
         66 GAGACTTCAAACCCCATCTTCATAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCAT

            *                * *             *    *               *          
       1015 TTTCCTGATGAGATACAGAGAAATGGACCAAATTCACCTTCTGGATGAGATACAGAGAAGTAGAC
        131 CTTCCTGATGAGATACAAAAAAATGGACCAAATCCACCATCTGGATGAGATACAAAGAAGTAGAC

                         
       1080 GAAATCAATGAAG
        196 GAAATCAATGAAG

       1093 CGAAACTCAA


Statistics
Matches: 178,  Mismatches: 30, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
 208  178  1.00

ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23


Consensus pattern (208 bp):   
AGGTCATCTTCCTAATGAGATACAGAGAAGTAAACCAAATCAATAAAGCAAAGCTCAATACGAAT
GAGACTTCAAACCCCATCTTCATAATAAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCAT
CTTCCTGATGAGATACAAAAAAATGGACCAAATCCACCATCTGGATGAGATACAAAGAAGTAGAC
GAAATCAATGAAG

Found at i:1104 original size:160 final size:160

Alignment explanation


    Indices: 892--1254  Score: 507
    Period size: 160  Copynumber: 2.3  Consensus size: 160

        882 AAGAGGTCAT

                  *        *     *   *           *                           
        892 CTTCCTAATGAGATATAGAGATGTAAATCAAATCAATAAAGC-AAAGCTCAATACGAATGAGACT
          1 CTTCCTGATGAGATACAGAGAAGTAGA-CAAATCAATGAAGCGAAAGCTCAATACGAATGAGACT

                                                                       *     
        956 TCAAACCTCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCATTTTCCT
         65 TCAAACCTCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCATCTTCCT

                       *                   
       1021 GATGAGATACAGAGAAATGGACCAAATTCAC
        130 GATGAGATACAAAGAAATGGACCAAATTCAC

                                                                             
       1052 CTT-CTGGATGAGATACAGAGAAGTAGACGAAATCAATGAAGCGAAA-CTCAATACGAATGAGAC
          1 CTTCCT-GATGAGATACAGAGAAGTAGAC-AAATCAATGAAGCGAAAGCTCAATACGAATGAGAC

                                                    *      *      * *       *
       1115 TTCAAACCTCATCTTCCTGATGAGATATAGAGAAGTGGGTGAAAGCAGTAAAGCGGTCATCTTCT
         64 TTCAAACCTCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCATCTTCC

                             *             *
       1180 TGATGAGATACAAAGAAGTGGACCAAATTCAT
        129 TGATGAGATACAAAGAAATGGACCAAATTCAC

                     *       *      *   *              
       1212 CTTCCTGATAAGATACAAAGAAGTGGATTAAATCAATGAAGCG
          1 CTTCCTGATGAGATACAGAGAAGTAGA-CAAATCAATGAAGCG

       1255 GTCATCTTTT


Statistics
Matches: 180,  Mismatches: 18, Indels: 10
        0.87            0.09        0.05

Matches are distributed among these distances:
 159    3  0.02
 160  172  0.96
 161    5  0.03

ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23


Consensus pattern (160 bp):   
CTTCCTGATGAGATACAGAGAAGTAGACAAATCAATGAAGCGAAAGCTCAATACGAATGAGACTT
CAAACCTCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCATCTTCCTG
ATGAGATACAAAGAAATGGACCAAATTCAC
Done.