Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006445.1 Kokia drynarioides strain JFW-HI SEQ_121028, 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: 5923
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35


Found at i:4722 original size:32 final size:32

Alignment explanation


    Indices: 4681--4986  Score: 387
    Period size: 32  Copynumber: 9.6  Consensus size: 32

       4671 CAAAAAATTC

                      *       *          *  
       4681 TTCACAGATTGATAGCTCCTATGAGCATATTG
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                                        *   
       4713 TTCACAGATTAATAGCTCTTATGAGCATGCTG
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                  *   *             *    *  
       4745 TTCACAAATTGATAGCTCTTATGACCATATTG
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                *         *                 
       4777 TTCATAGATTAATAACTCTTATGAGCATACTG
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                      *                    *
       4809 TTCACAGATTGATAGCTCTTATGAGCATACTA
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                                         * *
       4841 TTCACAGATTAATAGCTCTTATGAGCATATTA
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

             *    *                         
       4873 TGCACAAATTAATAGCTCTTATGAGCATACTG
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                          *  *           *  
       4905 TTCACAGATTAATAACTATTATGAGCATAATG
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                      *   *      *   *     *
       4937 TTCACAGATTGATATCTCTTACGAGTATACTA
          1 TTCACAGATTAATAGCTCTTATGAGCATACTG

                *             
       4969 TTCATAGATTAATAGCTC
          1 TTCACAGATTAATAGCTC

       4987 ATACAAATAT


Statistics
Matches: 234,  Mismatches: 40, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  32  234  1.00

ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36


Consensus pattern (32 bp):   
TTCACAGATTAATAGCTCTTATGAGCATACTG

Found at i:5844 original size:21 final size:21

Alignment explanation


    Indices: 5818--5870  Score: 63
    Period size: 21  Copynumber: 2.5  Consensus size: 21

       5808 ATAGGCGTGT

                          *       
       5818 GGGACACAC-AAGCGTGTGGAG
          1 GGGACACACGAA-CATGTGGAG

                                 
       5839 GGGACACACGAACATGTGGAG
          1 GGGACACACGAACATGTGGAG

             * *       
       5860 GAGCCACACGA
          1 GGGACACACGA

       5871 CCGTGTAACA


Statistics
Matches: 28,  Mismatches: 3, Indels: 2
        0.85            0.09        0.06

Matches are distributed among these distances:
  21   26  0.93
  22    2  0.07

ACGTcount: A:0.32, C:0.23, G:0.38, T:0.08


Consensus pattern (21 bp):   
GGGACACACGAACATGTGGAG
Done.