Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002595.1 Kokia drynarioides strain JFW-HI SEQ_114804, 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, 818

Length: 1364
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26


Found at i:818 original size:123 final size:124

Alignment explanation


    Indices: 579--884  Score: 339
    Period size: 123  Copynumber: 2.5  Consensus size: 124

        569 CCAAATTTGC

                     *                  *   *    *               *      *    
        579 CTTCTTGATTAGATACAGAGAAGTGGATTAAATCAATTAAGCA-GTCATCTTCTTGATGAGATAC
          1 CTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAG-AGGTCATCTTCCTGATGACATAC

                         *           **                 *  *            
        643 AAGGAAGTAGACTCAATCAATGAAGTGAAGCTCAATACGAATGAGACTTCAAACCCC-AT
         65 AAGGAAGTAGACTAAATCAATGAAGCAAAGCTCAATACGAATGAAACATCAAACCCCTAT

                *                      *                                     
        702 CTTCCTGATGAGATACAGAGAAGTGGACCAAAGCAATAAAGAGGTCATCTTCCTGATGACATAC-
          1 CTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGAGGTCATCTTCCTGATGACATACA

                      *                  **     *   *                   
        766 AGAGAAGTAGGCTAAATCAATGAAGCAAATTTCAATGCGAGTGAAACATCAAACCCCTAT
         66 AG-GAAGTAGACTAAATCAATGAAGCAAAGCTCAATACGAATGAAACATCAAACCCCTAT

            *                *        *  *   *       * *    *          
        826 TTTCTTGATGAGATACAAAGAAGTGGGTCGAAGTAATAAAGCGATCATTTTCCTGATGA
          1 CTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGAGGTCATCTTCCTGATGA

        885 GATATAAAGA


Statistics
Matches: 152,  Mismatches: 28, Indels: 5
        0.82            0.15        0.03

Matches are distributed among these distances:
 122    3  0.02
 123   98  0.64
 124   51  0.34

ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25


Consensus pattern (124 bp):   
CTTCTTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGAGGTCATCTTCCTGATGACATACA
AGGAAGTAGACTAAATCAATGAAGCAAAGCTCAATACGAATGAAACATCAAACCCCTAT

Found at i:1360 original size:48 final size:48

Alignment explanation


    Indices: 1259--1364  Score: 124
    Period size: 48  Copynumber: 2.2  Consensus size: 48

       1249 ACTTCAAACC

                      *                   *              *  
       1259 CCATCTTCCTGATGAGATACAGAAAAGTGGGTCAAAGAAATAAAGTGA
          1 CCATCTTCCTAATGAGATACAGAAAAGTGGATCAAAGAAATAAAGCGA

                                             *   **   *      
       1307 CCATCTTCCTAATGAGATACA-AAGAAGTGGATTAAATCAATGAAGCGA
          1 CCATCTTCCTAATGAGATACAGAA-AAGTGGATCAAAGAAATAAAGCGA

            *         
       1355 TCATCTTCCT
          1 CCATCTTCCT


Statistics
Matches: 49,  Mismatches: 8, Indels: 2
        0.83            0.14        0.03

Matches are distributed among these distances:
  47    2  0.04
  48   47  0.96

ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25


Consensus pattern (48 bp):   
CCATCTTCCTAATGAGATACAGAAAAGTGGATCAAAGAAATAAAGCGA
Done.