Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013556.1 Kokia drynarioides strain JFW-HI SEQ_128582, 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, 781

Length: 1303
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.24

Warning! 119 characters in sequence are not A, C, G, or T


Found at i:372 original size:215 final size:213

Alignment explanation


    Indices: 1--727  Score: 1003
    Period size: 215  Copynumber: 3.4  Consensus size: 213

                                 *                                    *      
          1 TTACAAAATGACAAAGCATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAAT
          1 TTACAAAATGACAAAGCATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT

                 *        *    *      *      *                               
         66 TACTCGAAGGAATGAATCGACTTGAACACTTTAGGGAACCAAAGTTATAAAAGAACTCGTAAAAG
         66 TACTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG

                               *                     *                       
        131 TTTCACAAGTTCATAAGTTTGTCCAAGAACCAAAAGAGTAATAATCTGACGTAAATAAGTTTTAA
        131 TTTCACAAGTTCATAAGTTCGTCCAAGAACCAAAAGAG-AACAATCTGA-GTAAATAAGTTTTAA

                                
        196 ATTCAAAGACCAAAAGTTGT
        194 ATTCAAAGACCAAAAGTTGT

                                             *            *                  
        216 TTACAAAATGACAAAGCATTTGGACCAAATGATACGATTTCCCGAGAATGGAATGTTCGAAAAAT
          1 TTACAAAATGACAAAGCATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT

                 *      *        *                              *    * *     
        281 TACTCGAAGGAAAGGATCGTCATGAATACTTTAAGGAACCAAAGTTATAAAATAACTTGAAAAAG
         66 TACTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG

               *       ***                                  * *             *
        346 TTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAAAGAGAACCAAGTCTCATTAAATAAGTTTTTT
        131 TTTCACAAGTTCATAAGTTCGTCCAAGAACCAAAAGAGAA-CAA-TCTGAGTAAATAAG-TTTTA

                    *             
        411 AATT-AAAAACCCAAAAGTTGT
        193 AATTCAAAGA-CCAAAAGTTGT

              *                                         *                    
        432 TTGC-AAATGACAAA-CTATTTGGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAA
          1 TTACAAAATGACAAAGC-ATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA

                *                                       *                    
        495 TTACGCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAATTATAAAAGAACTCGTAAAA
         65 TTACTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAA

                                                                *            
        560 GTTTCACAAGTTCATAAGTTCGTCCAAGAACCAAAAGAGAAACAATCTGATGCAAATAAGTTTTA
        130 GTTTCACAAGTTCATAAGTTCGTCCAAGAACCAAAAGAG-AACAATCTGA-GTAAATAAGTTTTA

                     *           
        625 AATTCAAAGGCCAAAAGTT-T
        193 AATTCAAAGACCAAAAGTTGT

                            * *                               *     *      * 
        645 TTACAAAAATGACAAACCGTTTGGACCAAATGATGCGATTTCCCGAGCATCGAATGCTCGAAATA
          1 TTAC-AAAATGACAAAGCATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA

              *               
        710 TTGCTCAAAGGAATGGAT
         65 TTACTCAAAGGAATGGAT

        728 NNNNNNNNNN


Statistics
Matches: 448,  Mismatches: 53, Indels: 22
        0.86            0.10        0.04

Matches are distributed among these distances:
 213    4  0.01
 214   24  0.05
 215  391  0.87
 216   29  0.06

ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25


Consensus pattern (213 bp):   
TTACAAAATGACAAAGCATTTGGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
TACTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
TTTCACAAGTTCATAAGTTCGTCCAAGAACCAAAAGAGAACAATCTGAGTAAATAAGTTTTAAAT
TCAAAGACCAAAAGTTGT
Done.