Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011594.1 Kokia drynarioides strain JFW-HI SEQ_126584, 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, 683

Length: 1139
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.27

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:393 original size:216 final size:215

Alignment explanation


    Indices: 37--623  Score: 757
    Period size: 216  Copynumber: 2.7  Consensus size: 215

         27 CGTAATTAAC

                     * *                 *                                   
         37 TTTTTAATTTATAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATT
          1 TTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATT

              *     *                  *     *                           *   
        102 TCACGAGCGTGGAATGTTTGGAAAATTTCTTGATGGAATGGATTGTCATGAATACTTTAAGGAAT
         66 TCCCGAGCATGGAATGTTTGGAAAATTGCTT-AAGGAATGGATTGTCATGAATACTTTAAGAAAT

            *  *        *     *                                         *  * 
        167 GAATGTTATAGATGAACTGGTAAAAGTTT-TCCAAG-TTGAGAAGTTCGTCCAAGAACCATGAGA
        130 CAAAGTTATAGAAGAACTCGTAAAAGTTTGT-CAAGTTTG-GAAGTTCGTCCAAGAACCAAGACA

                          *        
        230 GAAACAACTCTCACGTAAATAAG
        193 GAAACAACTCTCACATAAATAAG

                 *                                   *       *      *        
        253 TTTTTCATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAAGTATTTAGTCCAAATAATGCGATT
          1 TTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATT

                              ***                          *                 
        318 TCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGGAATGGATTGTCTTGAATACTTTAAGAAAT
         66 TCCCGAGCATGGAATGTTTGGAAAATTGCT-TAAGGAATGGATTGTCATGAATACTTTAAGAAAT

                                   *                         *               
        383 CAAAGTTATAGAAGAACTCGTAAGAGTTTGTCAAGTTTGGAAGTTCGTCTAAGAACCAAGACAGA
        130 CAAAGTTATAGAAGAACTCGTAAAAGTTTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGACAGA

                               * 
        448 AACAACTCTCACATAAATAGG
        195 AACAACTCTCACATAAATAAG

                                      *                    *   *             
        469 TTTTTAATTCAAAGACCAAAAGTTGTGTAGAAAATGACAAACTATTTGGACAAAATGATGCGATT
          1 TTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATT

                 *                      *  *           *   *             *   
        534 TCCCGTGCATGGAATGTTTGGAAAATTGATGGAAGGAATGGATCGTCGTGAATACTTTAAGGAA-
         66 TCCCGAGCATGGAATGTTTGGAAAATTGCT-TAAGGAATGGATTGTCATGAATACTTTAAGAAAT

              *     *  *              
        598 CTGAAGTTCTAAAAGAACTCGTAAAA
        130 C-AAAGTTATAGAAGAACTCGTAAAA

        624 CTTCGNNNNN


Statistics
Matches: 320,  Mismatches: 47, Indels: 8
        0.85            0.13        0.02

Matches are distributed among these distances:
 215    1  0.00
 216  314  0.98
 217    5  0.02

ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29


Consensus pattern (215 bp):   
TTTTTAATTCAAAGACCAAAAGTTGTTTAGAAAATGACAAACTATTTAGACCAAATGATGCGATT
TCCCGAGCATGGAATGTTTGGAAAATTGCTTAAGGAATGGATTGTCATGAATACTTTAAGAAATC
AAAGTTATAGAAGAACTCGTAAAAGTTTGTCAAGTTTGGAAGTTCGTCCAAGAACCAAGACAGAA
ACAACTCTCACATAAATAAG
Done.