Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014292.1 Kokia drynarioides strain JFW-HI SEQ_129327, 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, 1000

Length: 5793
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34

Warning! 3 characters in sequence are not A, C, G, or T


Found at i:3295 original size:216 final size:215

Alignment explanation


    Indices: 2913--3698  Score: 1140
    Period size: 216  Copynumber: 3.6  Consensus size: 215

       2903 AGCTCGCATC

                                                       *                     
       2913 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAA
          1 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA

                    *          * *                                    *      
       2978 GAGAGAAATAATTCTCACGCAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAGAATGAC
         66 GAGAGAAACAATTCTCACGTATATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAC

                              *  * *                                         
       3043 AAACTATTTAGACCAAATAATACAATATCCCGAGCATGGAATGTTCGGAAAATTATTGGAAGGAA
        131 AAACTATTTAGACCAAATGATGCGATATCCCGAGCATGGAATGTTCGGAAAATTATT-GAAGGAA

                                 
       3108 TGGATCGTCTTGAATGTTTTA
        195 TGGATCGTCTTGAATGTTTTA

                 *                *                        *        *        
       3129 AGGAATCGAAGTTATAAAAGAAGTCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCGAGAACCAA
          1 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA

                                              *                           *  
       3194 GAGAGAAACAATTCTCACGTATATAAGTTTTTAAATCAAAGACCAAAACTTGTTTACAAAATAAC
         66 GAGAGAAACAATTCTCACGTATATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAC

                                  *      *        *        *                 
       3259 AAACTATTTAGACCAAATGATGTGATATCTCGAGCATGAAATGTTCGAAAAATTACTTGAAGGAA
        131 AAACTATTTAGACCAAATGATGCGATATCCCGAGCATGGAATGTTCGGAAAATTA-TTGAAGGAA

                * *  **    ** ***
       3324 TGGAACATCACGAATACTACG
        195 TGGATCGTCTTGAATGTTTTA

                                                  *      *                *  
       3345 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACGAGTTCGAAAGTTCGTCCAAGAACTAA
          1 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA

                         *   *                  *                            
       3410 GAGAGAAACAATTATCATGTATATAAGTTTTTAATTAAAAGACCAAAACTTGTTTACAAAATGAC
         66 GAGAGAAACAATTCTCACGTATATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAC

                                      *    *             *         * *       
       3475 AAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTAGGAAAATTGCTAGAAGGAA
        131 AAACTATTTAGACCAAATGATGCGATATCCCGAGCATGGAATGTTCGGAAAATT-ATTGAAGGAA

                         *       
       3540 TGGATCGTCTTGATTGTTTTA
        195 TGGATCGTCTTGAATGTTTTA

                  *                            *        *      *             
       3561 AGGAACTGAAGTTATAAAAGAACTCGTAAAAGTTTAACAAGTTCAGAAGTTTGTCCAAGAACCAA
          1 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA

                                                      *    *                 
       3626 GAGAGAAACAATTCTCACGTATATAAGTTTTTAATTCAAAGAACAAAGCTTGTTTACAAAATGAC
         66 GAGAGAAACAATTCTCACGTATATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAC

                    
       3691 AAACTATT
        131 AAACTATT

       3699 CCATTAAAGC


Statistics
Matches: 498,  Mismatches: 70, Indels: 4
        0.87            0.12        0.01

Matches are distributed among these distances:
 216  496  1.00
 217    2  0.00

ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27


Consensus pattern (215 bp):   
AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAA
GAGAGAAACAATTCTCACGTATATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAC
AAACTATTTAGACCAAATGATGCGATATCCCGAGCATGGAATGTTCGGAAAATTATTGAAGGAAT
GGATCGTCTTGAATGTTTTA
Done.