Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009847.1 Kokia drynarioides strain JFW-HI SEQ_124574, 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: 3842
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24

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


Found at i:3205 original size:139 final size:139

Alignment explanation


    Indices: 2878--3425  Score: 760
    Period size: 139  Copynumber: 4.0  Consensus size: 139

       2868 ATCCACAAAG

                                                                             
       2878 CAGATTCGTCTTCCTGATGAGATACAGAGAAACGGATCGAAACAGTGATGGGATCATCTTCCTGA
          1 CAGATTCGTCTTCCTGATGAGATACAGAGAAACGGATCGAAACAGTGATGGGATCATCTTCCTGA

                                      *                                    * 
       2943 TGAGACACTGAGAAGAAAACCCAAACAAGGCTCGAAACGAGCAAA------TGATGAGATACGAA
         66 TGAGACACTGAGAAGAAAACCCAAACGAGGCTCGAAACGAGCAAATCTTCCTGATGAGATACGGA

                     
       3002 GAAGTGAAC
        131 GAAGTGAAC

            *        *                               *                       
       3011 TAGATTCGTATTCCTGATGAGATACAGAGAAACGGATCGAAGCAGTGATGGGATCATCTTCCTGA
          1 CAGATTCGTCTTCCTGATGAGATACAGAGAAACGGATCGAAACAGTGATGGGATCATCTTCCTGA

                     *                                                       
       3076 TGAGACACTAAGAAGAAAACCCAAACGAGGCTCGAAACGAGCAAATCTTCCTGATGAGATACGGA
         66 TGAGACACTGAGAAGAAAACCCAAACGAGGCTCGAAACGAGCAAATCTTCCTGATGAGATACGGA

                     
       3141 GAAGTGAAC
        131 GAAGTGAAC

                  *                            *         *                   
       3150 CAGATTTGTCTTCCTGATGAGATACAGAGAAACGGGTCGAAACAGCGATGGGATCATCTTCCTGA
          1 CAGATTCGTCTTCCTGATGAGATACAGAGAAACGGATCGAAACAGTGATGGGATCATCTTCCTGA

                                                                             
       3215 TGAGACACTGAGAAGAAAACCCAAACGAGGCTCGAAGA-GAGCAAATCTTCCTGATGAGATACGG
         66 TGAGACACTGAGAAGAAAACCCAAACGAGGCTCGAA-ACGAGCAAATCTTCCTGATGAGATACGG

                      
       3279 AGAAGTGAAC
        130 AGAAGTGAAC

                   *       *                 *   *                        *  
       3289 CAGATTCATCTTCCTAATGAGATACAGAGAAACCGATTGAAACAGTGA---G--CATCTTCCCGA
          1 CAGATTCGTCTTCCTGATGAGATACAGAGAAACGGATCGAAACAGTGATGGGATCATCTTCCTGA

                  **       * *              *   *    * *  *     *      *   * 
       3349 TGAGACGTTGAGAAGGAGACCCAAACGAGGCTTGAAGCGAGTAGATTTTCCAAGATGAGGTACTG
         66 TGAGACACTGAGAAGAAAACCCAAACGAGGCTCGAAACGAGCAAATCTTCC-TGATGAGATACGG

                      
       3414 AGAAGTGAAC
        130 AGAAGTGAAC

              
       3424 CA
          1 CA

       3426 AATGCATAAG


Statistics
Matches: 373,  Mismatches: 33, Indels: 16
        0.88            0.08        0.04

Matches are distributed among these distances:
 133  105  0.28
 134   51  0.14
 135   22  0.06
 136    1  0.00
 139  193  0.52
 140    1  0.00

ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19


Consensus pattern (139 bp):   
CAGATTCGTCTTCCTGATGAGATACAGAGAAACGGATCGAAACAGTGATGGGATCATCTTCCTGA
TGAGACACTGAGAAGAAAACCCAAACGAGGCTCGAAACGAGCAAATCTTCCTGATGAGATACGGA
GAAGTGAAC
Done.