Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010124.1 Kokia drynarioides strain JFW-HI SEQ_124917, 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, 669

Length: 1115
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.26


Found at i:461 original size:213 final size:214

Alignment explanation


    Indices: 1--1089  Score: 1086
    Period size: 215  Copynumber: 5.1  Consensus size: 214

                    *                             *                          
          1 TTCGTCCAGGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAA-TC-AACAGTCCAAA
          1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT-TTAATTCAAACA--CCAAA

                                             *   *  **            *        * 
         64 ACTTGTTTACAAAATGAC--A--A---AGACCACATGGTGATATTTCTCGAGCACGGAATGTTTG
         63 ACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCG

            *   *    * *                                  *              *   
        122 GAAATTTGCCCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAGTTATAAAAGAACTC-
        128 AAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAG-TATAAAAGAAATCG

              *                *    
        186 ATGAAAGTTTGACAAGTTCGAAAG
        192 A-AAAAGTTTGACAAGTTCAAAAG

               *                                                             
        210 TTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTCTAATTCAAACACCAAAAC
          1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT-TAATTCAAACACCAAAAC

                       *         *            *          *                   
        275 TTGTTTACAAACTGACAAACTGTTTAGACCAAATTATGCGATTTCCCGAGCATGGAATGTTCGAA
         65 TTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAA

                             *                * *                            
        340 AAATTGCTCGAAGGAATAGAT-GTCTTGAATACTATCAGGAACCGAAG-ATAAAAGAAATCGAAA
        130 AAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTATAAAAGAAATCGAAA

                           ** * 
        403 AAGTTTGACAAGTTCGGATG
        195 AAGTTTGACAAGTTCAAAAG

                       *                   *                        *        
        423 TTCGTCCAAGAGCCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATTCAAAAACCAAAAC
          1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAATTCAAACACCAAAAC

            *  *               * *         * *     *                 *  *    
        488 ATGGTTACAAAATGACAAAATTTTTAGACCATACGATGCAATTT-TACGAGCATGGAGTGATCGA
         65 TTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCT-CGAGCATGGAATGTTCGA

                                               *     **  *                   
        552 AAAATT-CTCGAAGGAATGGATCGTCTTGAATACTGTAAGGTGCCAAAGTTATAAAAGAACA-CG
        129 AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAG-TATAAAAGAA-ATCG

            * *        *       *   
        615 TATAAGTTTGAAAAGTTCAGAAG
        192 AAAAAGTTTGACAAGTTCAAAAG

                *                *                             * *   * *    *
        638 TTC-ACCTAAGAACCAAGAGAAAAACAATTCTCACGTAAATAAGGTTTTAAATGAAAGATCAAAT
          1 TTCGTCC-AAGAACCAAGAGAGAAACAATTCTCACGTAAATAA-GTTTTAATTCAAACACCAAAA

             *                       *            **          *         * *  
        702 CCTGTTTACAAAATGACAAACTATTCAGACCAAATGATTAGATTTCTCGATCATGGAAATCTGCG
         64 CTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGG-AATGTTCG

                 *                                                     *  *  
        767 AAAAACTGC-CTGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAACAACTC
        128 AAAAATTGCTC-GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAG-TATAAAAGAAATC

             *          *             
        831 GTAAAAGTTT-AAAATGTTCATAAA-
        191 GAAAAAGTTTGACAA-GTTCA-AAAG

                  *      *         *  *                             *        
        855 TTCGTCTAAGAACAAAGAGAGAATCAGTTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-
          1 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAATTCAAACACCAAAAC

                   *            *                 *                       * *
        919 TAT-TTTTCAAAATGACAAATTATTTAGACCAAATGATTCGATTTCTCGAGCATGGAATGTTTGG
         65 T-TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGA

                 *                    *   *   *  **                          
        983 AAAATAGCTCGAAGGAATGGATCGTCATGATTACCTTCTGGAACCGAAGTTATAAAAGAAATCGT
        129 AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAG-TATAAAAGAAATCG-

               *                 * 
       1048 AAAGAGTTTGACAAGTTCAAATG
        192 AAAAAGTTTGACAAGTTCAAAAG

                               
       1071 TTCGTCCAAGAACCAAGAG
          1 TTCGTCCAAGAACCAAGAG

       1090 TTACATAAAA


Statistics
Matches: 727,  Mismatches: 120, Indels: 59
        0.80            0.13        0.07

Matches are distributed among these distances:
 208    1  0.00
 209   67  0.09
 210    2  0.00
 211    5  0.01
 212   14  0.02
 213  165  0.23
 214    6  0.01
 215  205  0.28
 216  144  0.20
 217  115  0.16
 218    3  0.00

ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26


Consensus pattern (214 bp):   
TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTAATTCAAACACCAAAACT
TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAA
AATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTATAAAAGAAATCGAAAA
AGTTTGACAAGTTCAAAAG

Done.