Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002794.1 Kokia drynarioides strain JFW-HI SEQ_115134, 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: 4789
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33


Found at i:1657 original size:101 final size:101

Alignment explanation


    Indices: 1531--1887  Score: 455
    Period size: 101  Copynumber: 3.5  Consensus size: 101

       1521 ACAGTTGTGG

                *                             *    *             *        *  
       1531 ATCTGAATCTCCCTGAAGTTGCAGTGGAATGGAGGGAAGGTACAACACCAAATGCTATATCCTTG
          1 ATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGATACAACACCAAATCCTATATCCCTG

                                               *
       1596 AAGTTGTAGTGGATCGGATTAAAACTACGATAACGG
         66 AAGTTGTAGTGGATCGGATTAAAACTACGATAACGA

              *                 *       *                                    
       1632 ATTTCAATCTCCCTGAAGTTACAGTGGAGTGGAGTGAAGATACAACACCAAATCCTATATCCCTG
          1 ATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGATACAACACCAAATCCTATATCCCTG

                   *        *       *           
       1697 AAGTTGTTGTGGATCGAATTAAAATTACGATAACGA
         66 AAGTTGTAGTGGATCGGATTAAAACTACGATAACGA

                      *   *      *        *    *   *     *                   
       1733 ATCTCAATCTTCCTAAAGTTGTAGTGGAATAGAGTAAAGTTACAATACCAAATCCTATATCCCTG
          1 ATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGATACAACACCAAATCCTATATCCCTG

                  **                   *    *   
       1798 AAGTTGCGGTGGATCGGATTAAAACTATGATAGCGA
         66 AAGTTGTAGTGGATCGGATTAAAACTACGATAACGA

                        *        *         *       *               
       1834 ATCTCAATCTCCTTGAAGTTGTAGTGGAATGAAGTGAAGCTACAACGA-CAAATC
          1 ATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGATACAAC-ACCAAATC

       1888 TTATCTCATT


Statistics
Matches: 219,  Mismatches: 36, Indels: 2
        0.85            0.14        0.01

Matches are distributed among these distances:
 101  218  1.00
 102    1  0.00

ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27


Consensus pattern (101 bp):   
ATCTCAATCTCCCTGAAGTTGCAGTGGAATGGAGTGAAGATACAACACCAAATCCTATATCCCTG
AAGTTGTAGTGGATCGGATTAAAACTACGATAACGA

Found at i:1709 original size:50 final size:49

Alignment explanation


    Indices: 1540--1803  Score: 145
    Period size: 50  Copynumber: 5.2  Consensus size: 49

       1530 GATCTGAATC

                        *            *    *             *     
       1540 TCCCTGAAGTTGCAGTGGAATGGAGGGAAGGTACAACACCAAATGCTATA
          1 TCCCTGAAGTTGTAGTGG-ATGGAGTGAAGATACAACACCAAATCCTATA

               *                      *  *            ** * * *  *
       1590 TCCTTGAAGTTGTAGTGGATCGGA-TTAAAACTACGATA-ACGGATTTCAATC
          1 TCCCTGAAGTTGTAGTGGAT-GGAGTGAAGA-TAC-A-ACACCAAATCCTATA

                       **                                     
       1641 TCCCTGAAGTTACAGTGGAGTGGAGTGAAGATACAACACCAAATCCTATA
          1 TCCCTGAAGTTGTAGTGGA-TGGAGTGAAGATACAACACCAAATCCTATA

                         *      *  * *  *     * * * *      *  *
       1691 TCCCTGAAGTTGTTGTGGATCGAATTAAAATTACGATAACGAATCTCAATC
          1 TCCCTGAAGTTGTAGTGGATGGAGTGAAGA-TACAACACCAAATC-CTATA

             *   *               *    *   *     *             
       1742 TTCCTAAAGTTGTAGTGGAATAGAGTAAAGTTACAATACCAAATCCTATA
          1 TCCCTGAAGTTGTAGTGG-ATGGAGTGAAGATACAACACCAAATCCTATA

                        
       1792 TCCCTGAAGTTG
          1 TCCCTGAAGTTG

       1804 CGGTGGATCG


Statistics
Matches: 153,  Mismatches: 51, Indels: 20
        0.68            0.23        0.09

Matches are distributed among these distances:
  49   12  0.08
  50   69  0.45
  51   59  0.39
  52   13  0.08

ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27


Consensus pattern (49 bp):   
TCCCTGAAGTTGTAGTGGATGGAGTGAAGATACAACACCAAATCCTATA

Found at i:1754 original size:51 final size:50

Alignment explanation


    Indices: 1594--1861  Score: 157
    Period size: 51  Copynumber: 5.3  Consensus size: 50

       1584 GCTATATCCT

                                      *          *  *       *  
       1594 TGAAGTTGTAGTGGATCGGATTAAAACTACGATAACGGATTTCAATCTCCC
          1 TGAAGTTGTAGTGGATC-GATTAAAATTACGATAACGAATCTCAATCTTCC

                   **        *    *  *     * * * *      *  * *  
       1645 TGAAGTTACAGTGGAGTGGAGTGAAGA-TACAACACCAAATC-CTATATCCC
          1 TGAAGTTGTAGTGGA-TCGA-TTAAAATTACGATAACGAATCTCAATCTTCC

                     *                                         
       1695 TGAAGTTGTTGTGGATCGAATTAAAATTACGATAACGAATCTCAATCTTCC
          1 TGAAGTTGTAGTGGATCG-ATTAAAATTACGATAACGAATCTCAATCTTCC

             *               *  *    *    *   * *      *  * *  
       1746 TAAAGTTGTAGTGGAATAGAGTAAAGTTACAATACCAAATC-CTATATCCC
          1 TGAAGTTGTAGTGG-ATCGATTAAAATTACGATAACGAATCTCAATCTTCC

                    **                *  *    *                
       1796 TGAAGTTGCGGTGGATCGGATTAAAACTATGATAGCGAATCTCAATC-TCC
          1 TGAAGTTGTAGTGGATC-GATTAAAATTACGATAACGAATCTCAATCTTCC

                            
       1846 TTGAAGTTGTAGTGGA
          1 -TGAAGTTGTAGTGGA

       1862 ATGAAGTGAA


Statistics
Matches: 155,  Mismatches: 53, Indels: 18
        0.69            0.23        0.08

Matches are distributed among these distances:
  49    8  0.05
  50   65  0.42
  51   74  0.48
  52    8  0.05

ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29


Consensus pattern (50 bp):   
TGAAGTTGTAGTGGATCGATTAAAATTACGATAACGAATCTCAATCTTCC

Done.