Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007324.1 Kokia drynarioides strain JFW-HI SEQ_121940, 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: 5797
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33

Warning! 26 characters in sequence are not A, C, G, or T


Found at i:975 original size:17 final size:17

Alignment explanation


    Indices: 953--990  Score: 60
    Period size: 17  Copynumber: 2.2  Consensus size: 17

        943 AACAAATGCC

                             
        953 TATTTTCG-TAATTAAT
          1 TATTTTCGATAATTAAT

                              
        969 ATATTTTCGATAATTAAT
          1 -TATTTTCGATAATTAAT

                
        987 TATT
          1 TATT

        991 ATTTTTATAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  17   12  0.60
  18    8  0.40

ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55


Consensus pattern (17 bp):   
TATTTTCGATAATTAAT

Found at i:5095 original size:117 final size:118

Alignment explanation


    Indices: 4846--5311  Score: 625
    Period size: 117  Copynumber: 4.0  Consensus size: 118

       4836 CGGAGGTCCT

                 *   *      * *      * *      *            *           **   *
       4846 CGAACTTTCCAAAAATCATCATTTTTCTCCCGAATTTCCAAAAATCCAATTTTTGACCCTAAACT
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC

              * *                    *  *                   *    
       4911 TTTTGAAAATTACCATTTTACCCCCAAATTTCCAAAAATCCCATTTTTTA-CC
         66 TTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

             *  *   * *                                             * *      
       4963 CTAAACTTTTGAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGATCTCGAACC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC

                                   *                             
       5028 TTCTAAAAATTACCATTTTACCCTCGAAC-TCCAAAAATCCCATTTTTGACCC
         66 TTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

                                                *      *          *          
       5080 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTCCCAAAAGT-CCATTTTTAACCCCGAACC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC

                                                                *
       5144 TTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT
         66 TTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

                                         * *                                 
       5197 CGAACCTTCTAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTTGACCCCGAACC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC

                                    *                          
       5262 TT-TCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
         66 TTCT-AAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGA

       5312 TTACGAGCCT


Statistics
Matches: 305,  Mismatches: 40, Indels: 7
        0.87            0.11        0.02

Matches are distributed among these distances:
 116   63  0.21
 117  177  0.58
 118   65  0.21

ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32


Consensus pattern (118 bp):   
CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCGAACC
TTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

Found at i:5328 original size:59 final size:59

Alignment explanation


    Indices: 4846--5311  Score: 625
    Period size: 59  Copynumber: 7.9  Consensus size: 59

       4836 CGGAGGTCCT

                 *   *      * *      * *      *            *           
       4846 CGAACTTTCCAAAAATCATCATTTTTCTCCCGAATTTCCAAAAATCCAATTTTTGACCC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

            **   *  * *                    *  *                   *    
       4905 TAAACTTTTTGAAAATTACCATTTTACCCCCAAATTTCCAAAAATCCCATTTTTTA-CC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

             *  *   * *                                             * *
       4963 CTAAACTTTTGAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGATCT
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

                                         *                             
       5022 CGAACCTTCTAAAAATTACCATTTTACCCTCGAAC-TCCAAAAATCCCATTTTTGACCC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

                                                *      *          *    
       5080 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTCCCAAAAGT-CCATTTTTAACCC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

                                                                      *
       5138 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCT
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

                                         * *                           
       5197 CGAACCTTCTAAAAATTACCATTTTACCCTCAAACTTCCAAAAATCCCATTTTTGACCC
          1 CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC

                                          *                          
       5256 CGAACCTT-TCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTTGA
          1 CGAACCTTCT-AAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGA

       5312 TTACGAGCCT


Statistics
Matches: 364,  Mismatches: 39, Indels: 8
        0.89            0.09        0.02

Matches are distributed among these distances:
  58  162  0.45
  59  202  0.55

ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32


Consensus pattern (59 bp):   
CGAACCTTCTAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC
Done.