Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013966.1 Kokia drynarioides strain JFW-HI SEQ_128997, 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, 615

Length: 1025
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26


Found at i:741 original size:215 final size:212

Alignment explanation


    Indices: 359--1025  Score: 752
    Period size: 215  Copynumber: 3.1  Consensus size: 212

        349 TGATTTCACA

                      *                *    *                 *          *   
        359 AAGGAATGGACCATCTTGAA-ACTTTATCGAAGGAAGTTATAAAAGAACTTGTAAAAGTTTTACA
          1 AAGGAATGGATCATCTTGAATACTTTAACGAACGAAGTTATAAAAGAACTCGTAAAAGTTTGACA

                                                          *     *         ** 
        423 AG-TCTGAAAGTTCGT-CATAGAATCAAGAGAGAAATAATTCTCACATAAATCAGTCTTTAAACC
         66 AGATC-GAAAGTTCGTCCA-AGAATCAAGAGAGAAATAATTCTCACGTAAATAAGT-TTTAATTC

                        *                 *               * *           * *  
        486 AAAGACCAAAACATTTTA-AAATATGACAATCTATTTAGACCAAATAACGCGATTCCACGGGAAT
        128 AAAGACCAAAACTTTTTACAAA-ATGACAAACTATTTAGACCAAATGATGCGATTCC-CGAGCAT

                 ** *             
        550 GGAATATTTGAAAAATTGATCG
        191 GGAATGCTCGAAAAATTGATCG

                        *               *                 *                  
        572 AAGGAATGGATCGTCTTGAATACTTTAAGGAATCGAAGTTATAAAATAACTCGTAAAAGTTTGAC
          1 AAGGAATGGATCATCTTGAATACTTTAACGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGAC

                                    *                                        
        637 AAGATCG-AAGTTCGTCCAAGAATGAAGAGAGAAATAATTCTCACGTAAATAAGATTTTAATTCA
         65 AAGATCGAAAGTTCGTCCAAGAATCAAGAGAGAAATAATTCTCACGTAAATAAG-TTTTAATTCA

                     **                                                *     
        701 AAGACCAAATGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGTGCATG
        129 AAGACCAAAACTT-TTTACAAAATGACAAACTATTTAGACCAAATGATGCGA-TTCCCGAGCATG

                    *            
        766 GAATGCTCAAAAAATTGATCG
        192 GAATGCTCGAAAAATTGATCG

                        *       * *     *                                    
        787 AAGGAATGGATCGTCTTGAACAATTTAATGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
          1 AAGGAATGGATCATCTTGAATACTTTAACGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGAC

              *                    * *       * *                        *   *
        852 AACATCGAAAGTTCGTCCAAGAACCCAGAGAGAGACAATTC-CTACGTAAATAAGTTTTCGATTT
         65 AAGATCGAAAGTTCGTCCAAGAATCAAGAGAGAAATAATTCTC-ACGTAAATAAGTTTT-AATTC

               *                *  * *                *       *     **       
        916 AAACACCAAAACTTTTTCACGAAGTCACAAACTATTTAGACCGAATGATGTGATTTTTCGAGCAT
        128 AAAGACCAAAACTTTTT-ACAAAATGACAAACTATTTAGACCAAATGATGCGA-TTCCCGAGCAT

                              *   
        981 GGAATGCTCGAAAAATTGCTCG
        191 GGAATGCTCGAAAAATTGATCG

                                   
       1003 AAGGAATGGATCATCTTGAATAC
          1 AAGGAATGGATCATCTTGAATAC


Statistics
Matches: 388,  Mismatches: 54, Indels: 21
        0.84            0.12        0.05

Matches are distributed among these distances:
 213   18  0.05
 214   66  0.17
 215  163  0.42
 216  141  0.36

ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27


Consensus pattern (212 bp):   
AAGGAATGGATCATCTTGAATACTTTAACGAACGAAGTTATAAAAGAACTCGTAAAAGTTTGACA
AGATCGAAAGTTCGTCCAAGAATCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTAATTCAAA
GACCAAAACTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTCCCGAGCATGGAAT
GCTCGAAAAATTGATCG

Done.