Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003124.1 Kokia drynarioides strain JFW-HI SEQ_115697, 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, 663

Length: 1105
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29


Found at i:624 original size:216 final size:214

Alignment explanation


    Indices: 1--1094  Score: 986
    Period size: 216  Copynumber: 5.0  Consensus size: 214

                         *    *  *     *      *     *   *                    
          1 GGAATGTTCGGAATATTGCTCGAAGGACTGGATCATCTTGGATAGTTTAAGGAACCGAAGTTATC
          1 GGAATGTTCGGAAAATT-TTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-AAGTTAT-

                     * *        *          *      **        *   *       *    
         66 ATAGAAGAAATAGTAAAAGTGTGACAAGTTCAGAAGTTTGTCTAAGAATCAAAAGAGAAATAATT
         63 A-A-AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCTAAGAACCAAGAGAGAAACAATT

              ** *                     *                *              *    *
        131 CTTTCCTAAATATA-TTTTTAATTCAAGGACCAAAAAGTTGTTTGCAAAATGACAAACTCTTTAA
        126 CTCACATAAATA-AGTTTTTAATTCAAAGACC-AAAAGTTGTTTACAAAATGACAAACTATTTAG

                *    *       *         
        195 ACCAGATGACGCTATTTCCT-GAGCAT
        189 ACCAAATGATGC-ATTTTCTCGAGCAT

                  *      *    *  *                            *              
        221 GGAATGCTCGGAATATTGATCGAAGGAATGGATCGTCTTGAATACTTTAATGAACCAAAGTTATA
          1 GGAATGTTCGGAAAATT-TTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-AAGTTATA

                                   *     *   *       *               *  *    
        286 AAAGAACTCGTAAAAAGTTTGACTAGTTCTGATGGTT-ATCAAAGAACCAA-AGGAGTAATAATT
         64 AAAGAACTCGT-AAAAGTTTGACAAGTTCGGA-AGTTCATCTAAGAACCAAGA-GAGAAACAATT

                 *              *  **          *       *                     
        349 CTCACGTAAATAAGTTTTTAGTTTGAAGACCAAAACTTGGTTTTCAAAATGAC-AACTATTTAGA
        126 CTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTT-GTTTACAAAATGACAAACTATTTAGA

                 *              *    
        413 CCAAAAGATGCATTTTCTCGGGCAT
        190 CCAAATGATGCATTTTCTCGAGCAT

                    *             *  *  *    *                               
        438 GGAATGTTTGGAAAATTTCTCATAGAAACGGATGGTCTTGAATACTTTAAGGAACCGAAGTTATA
          1 GGAATGTTCGGAAAATTT-TCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-AAGTTATA

               *               *          *     *                *          *
        503 AAATAACTCGTAAAAGTTTTACAAGTTCGGTAGTTCGTAC-AAGAACCAAGAGGGAGAA-AATTT
         64 AAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCAT-CTAAGAACCAAGAGAGA-AACAATTC

                                                 *  *                      * 
        566 TCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTCACAAAATGACAAACTATTTAGATC
        127 TCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACC

                              * *   
        631 AAATGATGCGATTTT-TCAAACAT
        192 AAATGATGC-ATTTTCTCGAGCAT

            *         *                             *    *    *         *   *
        654 TGAATGTTCGAAAAATTTGT-AGAAGGAATGGATCG-CATAGAATGCTTTGAGGAACCTATGTTG
          1 GGAATGTTCGGAAAATTT-TCA-AAGGAATGGATCGTC-TTGAATACTTTAAGGAACC-AAGTTA

            *                                         *     **               
        717 CAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCTCAGAACTTAGAGAGAAACAATTC
         62 TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCTAAGAACCAAGAGAGAAACAATTC

               * *                                    *           *          
        782 TCATAAAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAAATATTTAGACC
        127 TCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACC

            *         *   *     *  
        847 GAATGATGCAATTTGTCGAGAAT
        192 AAATGATGCATTTTCTCGAGCAT

                    *    *       *             **                        **  
        870 GGAATGTTTGGAATATTGGTTGAAA-GAATGGATCACCTTGAATACTTTAAGGAACCAATGCCAT
          1 GGAATGTTCGGAAAATT--TTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAA-GTTAT

                             *    *     **       *                         * 
        934 AAAAGAACTCGTAAAAGCTTGAAAAGTTAAGAAGTTCGTCTAAGAACCAAGAGAGAAACAATTTT
         63 AAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCTAAGAACCAAGAGAGAAACAATTCT

                   *                                  *      *               
        999 CACATAATTAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACGAAATGAAAAACTATTTAGACCA
        128 CACATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCA

             *       *      *     
       1064 AGTGATGCAATTTCTCAAGCAT
        193 AATGATGCATTTTCTCGAGCAT

                     
       1086 GGAATGTTC
          1 GGAATGTTC

       1095 ATAAAGTTGC


Statistics
Matches: 712,  Mismatches: 139, Indels: 50
        0.79            0.15        0.06

Matches are distributed among these distances:
 215   24  0.03
 216  439  0.62
 217  114  0.16
 218   75  0.11
 219    4  0.01
 220   56  0.08

ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29


Consensus pattern (214 bp):   
GGAATGTTCGGAAAATTTTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAGTTATAAA
AGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCTAAGAACCAAGAGAGAAACAATTCTCAC
ATAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAAT
GATGCATTTTCTCGAGCAT
Done.