Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009416.1 Kokia drynarioides strain JFW-HI SEQ_124123, 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, 859

Length: 1432
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29


Found at i:562 original size:215 final size:215

Alignment explanation


    Indices: 156--1432  Score: 1242
    Period size: 215  Copynumber: 6.0  Consensus size: 215

        146 AAAAAAGTTA

                              **       *                                  *  
        156 TAAAAGTTTGTCAAGTT-TAAAGTTCGGCCGAGAACCAAGAAAGAAACAATTCTCACATAAAGAA
          1 TAAAAGTTTGTCAAGTTCGGAAGTTCGACCGAGAACCAAGAAAGAAACAATTCTCACATAAATAA

                                                                *   *    *   
        220 -TTTATTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAGACCAAAAGATGAGAT
         66 GTTT-TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAGACTAAATGATGCGAT

                      *            *     *              *             *      
        284 TTACTA-AGCTTGGAATGTTAAATAAATTTCT-GAAAGGAATGGTTCGTCTTGAATACCTTAAGG
        130 TT-CTAGAGCATGGAATGTTAAAGAAATTGCTCG-AAGGAATGGATCGTCTTGAATACTTTAAGG

                *                  
        347 AACCGAAGTTATAAAAGAACTCG
        193 AACCAAAGTTATAAAAGAACTCG

                          *      *     *  *          *      *        * *     
        370 TAAAAGTTTGTCAACTTCGGATGTTCGGCCTAGAACCAAGAGAGAAACTATTCTCACCTGAATAA
          1 TAAAAGTTTGTCAAGTTCGGAAGTTCGACCGAGAACCAAGAAAGAAACAATTCTCACATAAATAA

                        *                   *    *                         * 
        435 GTTTTTAATTCATAGACCAAAAGTTGTTTACATAATGGCAACTATTTAGACTAAATGATGCGACT
         66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAGACTAAATGATGCGATT

                               **       *            *   *     *   *         
        500 TCTAGAGCATGGAATGTTCTTA-AAATTACTCGAAGGAATGAATCATCTTGTATAGTTTAAGGAA
        131 TCTAGAGCATGGAATGTT-AAAGAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA

            *                   *
        564 TCAAAGTTATAAAAGAACTCA
        195 CCAAAGTTATAAAAGAACTCG

             *       *                                                *      
        585 TTAAAGTTTTTCAAGTTCGGAAGTTCGACCGAGAACCAA-AAGAGAAACAATTCTCACCTAAATA
          1 TAAAAGTTTGTCAAGTTCGGAAGTTCGACCGAGAACCAAGAA-AGAAACAATTCTCACATAAATA

                *                           *                    *      *   *
        649 AGTTCTTAATTCAAAGACCAAAAGTAT-TTTAAAAAATTGACAACTATTTAGGCCT-AATTATGT
         65 AGTTTTTAATTCAAAGACCAAAAGT-TGTTTACAAAA-TGACAACTATTTA-GACTAAATGATGC

               *  **         *       *             **       *   *     *      
        712 GATCTCCGGAGCATGGACTGTGT-AGGAAATTGCTCGAAATAATGGATTGTCCTGAATTCTTTAA
        127 GATTTCTAGAGCATGGAATGT-TAAAGAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAA

            *    *                   
        776 CGAACAAAAGTTATAAAAGAACTCG
        191 GGAACCAAAGTTATAAAAGAACTCG

             *                ***      * *       *                 *         
        801 TTAAAGTTCT-TCAAGTTTAAAAGTTCAATCGAGAACAAAGAAAGAAACAATTCTAACATAAATA
          1 TAAAAGTT-TGTCAAGTTCGGAAGTTCGACCGAGAACCAAGAAAGAAACAATTCTCACATAAATA

             *                                                       *       
        865 ACTTGTTT--TT-----A-CAAAA--TG---AC--AATG-----TATTTAGAAC-AAGTGATGCG
         65 AGTT-TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAG-ACTAAATGATGCG

                 **                                                         *
        909 ATTTCCCGAGCATGGAATGTTCAAA-AAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAT
        128 ATTTCTAGAGCATGGAATGTT-AAAGAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAG

                *               * **
        973 GAACAAAAGTTATAAAAGAAGTTA
        192 GAACCAAAGTTATAAAAGAACTCG

                       *      **                                          *  
        997 TAAAAGTTTGTAAAGTT-TAAAGTTCGACCGAGAACCAAGAAAGAAACAATTCTCACATAAAGAA
          1 TAAAAGTTTGTCAAGTTCGGAAGTTCGACCGAGAACCAAGAAAGAAACAATTCTCACATAAATAA

                                                                *   *    *   
       1061 -TTTATTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAGACCAAAAGATGAGAT
         66 GTTT-TTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAGACTAAATGATGCGAT

                      *            *     *              *             *      
       1125 TTACTA-AGCTTGGAATGTTAAATAAATTTCT-GAAAGGAATGGTTCGTCTTGAATACCTTAAGG
        130 TT-CTAGAGCATGGAATGTTAAAGAAATTGCTCG-AAGGAATGGATCGTCTTGAATACTTTAAGG

                *                  
       1188 AACCGAAGTTATAAAAGAACTCG
        193 AACCAAAGTTATAAAAGAACTCG

                          *      *     *  *          *      *        * *     
       1211 TAAAAGTTTGTCAACTTCGGATGTTCGGCCTAGAACCAAGAGAGAAACTATTCTCACCTGAATAA
          1 TAAAAGTTTGTCAAGTTCGGAAGTTCGACCGAGAACCAAGAAAGAAACAATTCTCACATAAATAA

                        *                   *    *                           
       1276 GTTTTTAATTCATAGACCAAAAGTTGTTTACATAATGGCAACTATTTAGACTAAATGATGCGATT
         66 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAGACTAAATGATGCGATT

                               **                        *         *         
       1341 TCTAGAGCATGGAATGTTCTTA-AAATTGCTCGAAGGAATGGATCATCTTGAATAGTTTAAGGAA
        131 TCTAGAGCATGGAATGTT-AAAGAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA

            *                    
       1405 TCAAAGTTATAAAAGAACTCG
        195 CCAAAGTTATAAAAGAACTCG

                   
       1426 TAAAAGT
          1 TAAAAGT


Statistics
Matches: 866,  Mismatches: 147, Indels: 99
        0.78            0.13        0.09

Matches are distributed among these distances:
 193    1  0.00
 194    4  0.00
 195   44  0.05
 196   99  0.11
 197    1  0.00
 201    3  0.00
 202    7  0.01
 204    3  0.00
 206    1  0.00
 207    2  0.00
 209    9  0.01
 210    1  0.00
 213    6  0.01
 214  120  0.14
 215  408  0.47
 216  148  0.17
 217    9  0.01

ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29


Consensus pattern (215 bp):   
TAAAAGTTTGTCAAGTTCGGAAGTTCGACCGAGAACCAAGAAAGAAACAATTCTCACATAAATAA
GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAACTATTTAGACTAAATGATGCGATT
TCTAGAGCATGGAATGTTAAAGAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
CAAAGTTATAAAAGAACTCG

Done.