Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005396.1 Kokia drynarioides strain JFW-HI SEQ_119401, 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, 682

Length: 1137
ACGTcount: A:0.41, C:0.14, G:0.28, T:0.16


Found at i:1034 original size:72 final size:70

Alignment explanation


    Indices: 652--1034  Score: 340
    Period size: 72  Copynumber: 5.4  Consensus size: 70

        642 AATCAGAGTT

                                            *                    * *  *      
        652 ACCAAAGTTGGTCGAGAAGAAGGAACTTGAAGTGATACCCAAGGTGGAGAG-TGGTGAGAAGGTA
          1 ACCAAAGTTGGTCGAGAAGAAGGAACTTGAAGAGATACCCAAGGTGGAGAGATTGAGAAAAGGTA

                 
        716 TCAAA
         66 TCAAA

                      *              *    *  * * *      *      *      *      
        721 ACCAAAGTTGATCGAGAAGAAGGAAATTGAGGACACATCCAAGGGGGTCAGTG-TTGGGGAAAAG
          1 ACCAAAGTTGGTCGAGAAGAAGGAACTTGAAGAGATACCCAAGGTGG--AGAGATT-GAGAAAAG

                    
        785 GTATCAAA
         63 GTATCAAA

                        *           * * *     *                              
        793 ACCAAAGTTGGTTGAGAAGAAGGACCCTAAAGAGGTACCCAAGGTGGAGAACGA-TGAGCAAAAG
          1 ACCAAAGTTGGTCGAGAAGAAGGAACTTGAAGAGATACCCAAGGTGGAG-A-GATTGAG-AAAAG

               *    
        857 GTACCAAA
         63 GTATCAAA

                        *         *   *   *    *        *       *          * 
        865 ACCAAAGTTGGTTGAGAAGAAGAAACCTGATGAGACACCCAAGGAGGAGAGGGTTGAGGAAAAAG
          1 ACCAAAGTTGGTCGAGAAGAAGGAACTTGAAGAGATACCCAAGGTGGAGA-GATTGA-GAAAAGG

              *    
        930 TACCAAA
         64 TATCAAA

             *          *                          *                         
        937 ATCAAAGTTGGTTGAGAAGAAGGAACTTGAAGAGATACCTAAGGTGGAGAGTATTGAGAAGAAGG
          1 ACCAAAGTTGGTCGAGAAGAAGGAACTTGAAGAGATACCCAAGGTGGAGAG-ATTGAGAA-AAGG

            *  **  
       1002 CATGGAA
         64 TATCAAA

                      *               
       1009 ACCAAAGTTGATCGAGAAGAAGGAAC
          1 ACCAAAGTTGGTCGAGAAGAAGGAAC

       1035 CTAAAGACGC


Statistics
Matches: 250,  Mismatches: 53, Indels: 19
        0.78            0.16        0.06

Matches are distributed among these distances:
  69   39  0.16
  70    2  0.01
  71   12  0.05
  72  196  0.78
  73    1  0.00

ACGTcount: A:0.41, C:0.13, G:0.31, T:0.15


Consensus pattern (70 bp):   
ACCAAAGTTGGTCGAGAAGAAGGAACTTGAAGAGATACCCAAGGTGGAGAGATTGAGAAAAGGTA
TCAAA

Found at i:1036 original size:144 final size:143

Alignment explanation


    Indices: 654--1137  Score: 464
    Period size: 144  Copynumber: 3.4  Consensus size: 143

        644 TCAGAGTTAC

                      *             *     *                    * *           
        654 CAAAGTTGGTCGAGAAGAAGGAACTTGAAGTGATACCCAAGGTGGAGAG-TGGTG-AGAAGGTAT
          1 CAAAGTTGGTTGAGAAGAAGGAACCTGAAGAGATACCCAAGGTGGAGAGATTGAGAAGAAGGTAT

                                         **   *  *   *      *  **       *    
        717 CAAAACCAAAGTTGATCGAGAAGAAGGAAATTGAGGACACATCCAAGGGGGTCAGTGTTGGGGAA
         66 CAAAACCAAAGTTGATCGAGAAGAAGGAACCTGAAGAGACACCCAAGGAGGAGAGTGTTGAGGAA

              *   *     *
        782 AAGGTATCAAAAC
        131 AAAGTACCAAAAT

                                  *   *     *                                
        795 CAAAGTTGGTTGAGAAGAAGGACCCTAAAGAGGTACCCAAGGTGGAGAACGA-TGAGCAA-AAGG
          1 CAAAGTTGGTTGAGAAGAAGGAACCTGAAGAGATACCCAAGGTGGAG-A-GATTGAG-AAGAAGG

              *              * *         *       *                    *      
        858 TACCAAAACCAAAGTTGGTTGAGAAGAAGAAACCTGATGAGACACCCAAGGAGGAGAGGGTTGAG
         63 TATCAAAACCAAAGTTGATCGAGAAGAAGGAACCTGAAGAGACACCCAAGGAGGAGAGTGTTGAG

                            
        923 GAAAAAGTACCAAAAT
        128 GAAAAAGTACCAAAAT

                                    *            *                         * 
        939 CAAAGTTGGTTGAGAAGAAGGAACTTGAAGAGATACCTAAGGTGGAGAGTATTGAGAAGAAGGCA
          1 CAAAGTTGGTTGAGAAGAAGGAACCTGAAGAGATACCCAAGGTGGAGAG-ATTGAGAAGAAGGTA

             **                              *        *           *          
       1004 TGGAAACCAAAGTTGATCGAGAAGAAGGAACCTAAAGACG-CGCCCAA-GAGGGGGAGTGTTGAG
         65 TCAAAACCAAAGTTGATCGAGAAGAAGGAACCTGAAGA-GACACCCAAGGA-GGAGAGTGTTGAG

                 *          
       1067 GAAAATGTACCAAAAT
        128 GAAAAAGTACCAAAAT

            *  * *           *                                        
       1083 TAAGGCTGGTTGA-AACTAAGGAACCTGAAGAGGA-ACCCAAAGG-GGAGAGTATTGA
          1 CAAAGTTGGTTGAGAA-GAAGGAACCTGAAGA-GATACCC-AAGGTGGAGAG-ATTGA


Statistics
Matches: 281,  Mismatches: 49, Indels: 23
        0.80            0.14        0.07

Matches are distributed among these distances:
 141   41  0.15
 142    2  0.01
 143   11  0.04
 144  219  0.78
 145    8  0.03

ACGTcount: A:0.40, C:0.13, G:0.32, T:0.15


Consensus pattern (143 bp):   
CAAAGTTGGTTGAGAAGAAGGAACCTGAAGAGATACCCAAGGTGGAGAGATTGAGAAGAAGGTAT
CAAAACCAAAGTTGATCGAGAAGAAGGAACCTGAAGAGACACCCAAGGAGGAGAGTGTTGAGGAA
AAAGTACCAAAAT
Done.