Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001891.1 Kokia drynarioides strain JFW-HI SEQ_113672, 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, 658

Length: 1098
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29


Found at i:460 original size:216 final size:215

Alignment explanation


    Indices: 7--1095  Score: 1044
    Period size: 216  Copynumber: 5.1  Consensus size: 215

          1 TTCTCA

                        *                   *                  *          *  
          7 AAGGAATGGATCATCTTGAA-ACTTTAACGAAGGAAGTTATAGAA-GAACTTGTAAAAGTTTTAC
          1 AAGGAATGGATCGTCTTGAATACTTTAACGAACGAAGTTATA-AAGGAACTCGTAAAAGTTTGAC

                *          *          **                            *        
         70 AAAGTTCGGAAGTTCAT--AATAGAATGAAGTGAGAAATAATTCTTTCA--TAAATGAG-TCTTT
         65 -AAGATCGGAAGTTCGTCCAA-A-AACCAAGTGAGAAATAATTC--TCATGTAAATAAGAT-TTT

                *                     *           *      * * *    *   *      
        130 GAA-CCAAAGACCAAAACA-T-TTTAAAAATATGACAATCTATT-TAGCGAAATGATGCGATTTC
        124 -AATTCAAAGACCAAAA-ATTGTTTACAAA-ATGACAAACTATTGAAACCAAATAATGTGATTTC

            *  * *      **                
        191 ACGGGAATGGAAAATTCAGAAAATTGATCG
        186 TCGAGCATGGAATGTTCAGAAAATTGATCG

                   *        *           *                                    
        221 AAGGAATTGATCGTCTAGAATACTTTAAGGAATCGAAGTTATAAAGGAACTCGTAAAAGTTTGAC
          1 AAGGAATGGATCGTCTTGAATACTTTAACGAA-CGAAGTTATAAAGGAACTCGTAAAAGTTTGAC

                         *            **                                     
        286 AAGATCGGAAGTTTGTCCAAAAACCATCTGAGAAATAATTCTCATGTAAATAAGATTTTAATTCA
         65 AAGATCGGAAGTTCGTCCAAAAACCAAGTGAGAAATAATTCTCATGTAAATAAGATTTTAATTCA

                                                                           * 
        351 AAGACCAAAAATTGTTTACAAAATGACAAACTATTGAAACCAAATAATGTGATTTCTCGAGCACG
        130 AAGACCAAAAATTGTTTACAAAATGACAAACTATTGAAACCAAATAATGTGATTTCTCGAGCATG

                     *       * * 
        416 GAATGTTCAAAAAATTGCTGG
        195 GAATGTTCAGAAAATTGATCG

                                                         *    *              
        437 AAGGAATGGATCGTCTTGAATACTTTAACGAACAGAAGTTATAAAAGAACCCGTAAAAGTTTGAC
          1 AAGGAATGGATCGTCTTGAATACTTTAACGAAC-GAAGTTATAAAGGAACTCGTAAAAGTTTGAC

               * *              *       *      *        *         *          
        502 AAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA
         65 AAGATCGGAAGTTCGTCCAAAAACCAAGTGAGAAATAATTCTCATGTAAATAAGATTTTAATTCA

              *              *                 * *       *          *        
        567 AATACC-----TTGTTTTCAAAATGACAAACTATTTATACCAAATGATGTGATTTCCCGAGCATG
        130 AAGACCAAAAATTGTTTACAAAATGACAAACTATTGAAACCAAATAATGTGATTTCTCGAGCATG

                    *       **  *
        627 GAATGTTCGGAAAATTTCTCA
        195 GAATGTTCAGAAAATTGATCG

                        *                   *                  *          *  
        648 AAGGAATGGATCATCTTGAA-ACTTTAACGAAGGAAGTTATAGAA-GAACTTGTAAAAGTTTTAC
          1 AAGGAATGGATCGTCTTGAATACTTTAACGAACGAAGTTATA-AAGGAACTCGTAAAAGTTTGAC

                *                     **   *                        *        
        711 AAAGTTCGGAAGTTCGT--AATAGAATGAAGGGAGAAATAATTCTTTCA--TAAATGAG-TCTTT
         65 -AAGATCGGAAGTTCGTCCAA-A-AACCAAGTGAGAAATAATTC--TCATGTAAATAAGAT-TTT

                *                                 *      * * *    *   *      
        771 GAA-CCAAAGACCAAAACATT-TTTA-AAATATGACAACCTATT-TAGCGAAATGATGCGATTTC
        124 -AATTCAAAGACCAAAA-ATTGTTTACAAA-ATGACAAACTATTGAAACCAAATAATGTGATTTC

            *  * *      **                
        832 ACGGGAATGGAAAATTCAGAAAATTGATCG
        186 TCGAGCATGGAATGTTCAGAAAATTGATCG

                   *        *           *                                    
        862 AAGGAATTGATCGTCTAGAATACTTTAAGGAATCGAAGTTATAAAGGAACTCGTAAAAGTTTGAC
          1 AAGGAATGGATCGTCTTGAATACTTTAACGAA-CGAAGTTATAAAGGAACTCGTAAAAGTTTGAC

                         *           **   *                                  
        927 AAGATCGGAAGTTTGTCCAAAAACCTTGTGGGAAATAATTCTCATGTAAATAAGATTTTAATTCA
         65 AAGATCGGAAGTTCGTCCAAAAACCAAGTGAGAAATAATTCTCATGTAAATAAGATTTTAATTCA

                                                                             
        992 AAGACCAAAAATTGTTTACAAAATGACAAACTATTGAAACCAAATAATGTGATTTCTCGAGCATG
        130 AAGACCAAAAATTGTTTACAAAATGACAAACTATTGAAACCAAATAATGTGATTTCTCGAGCATG

                     *       * * 
       1057 GAATGTTCAAAAAATTGTTGG
        195 GAATGTTCAGAAAATTGATCG

                              
       1078 AAGGAATGGATCGTCTTG
          1 AAGGAATGGATCGTCTTG

       1096 TAT


Statistics
Matches: 713,  Mismatches: 122, Indels: 78
        0.78            0.13        0.09

Matches are distributed among these distances:
 208    2  0.00
 209   26  0.04
 210   61  0.09
 211   85  0.12
 212    3  0.00
 213    6  0.01
 214   81  0.11
 215  170  0.24
 216  275  0.39
 217    4  0.01

ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28


Consensus pattern (215 bp):   
AAGGAATGGATCGTCTTGAATACTTTAACGAACGAAGTTATAAAGGAACTCGTAAAAGTTTGACA
AGATCGGAAGTTCGTCCAAAAACCAAGTGAGAAATAATTCTCATGTAAATAAGATTTTAATTCAA
AGACCAAAAATTGTTTACAAAATGACAAACTATTGAAACCAAATAATGTGATTTCTCGAGCATGG
AATGTTCAGAAAATTGATCG
Done.