Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002352.1 Kokia drynarioides strain JFW-HI SEQ_114417, 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, 824

Length: 1374
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37


Found at i:474 original size:17 final size:17

Alignment explanation


    Indices: 414--476  Score: 90
    Period size: 17  Copynumber: 3.7  Consensus size: 17

        404 CGGACTTCTC

                     *    *  
        414 TAAATTTAATTTTATAA
          1 TAAATTTAAATTTAAAA

                         *   
        431 TAAATTTAAATTTCAAA
          1 TAAATTTAAATTTAAAA

                             
        448 TAAATTTAAATTTAAAA
          1 TAAATTTAAATTTAAAA

                *       
        465 TAAACTTAAATT
          1 TAAATTTAAATT

        477 CAATTTCCAA


Statistics
Matches: 41,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  17   41  1.00

ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44


Consensus pattern (17 bp):   
TAAATTTAAATTTAAAA

Found at i:1239 original size:139 final size:139

Alignment explanation


    Indices: 943--1374  Score: 588
    Period size: 139  Copynumber: 3.1  Consensus size: 139

        933 ATTCGCTTAT

                *             *   *    *  *       *          *              *
        943 GAATTTGGTTCACTTCTCAGTACCTCAACTTGGAAGATCTGCTTGCTTCAAGCCTCGTTTGGGTC
          1 GAATCTGGTTCACTTCTCCGTATCTCATC-AGGAAGATTTGCTTGCTTCGAGCCTCGTTTGGGTT

             *        *        *                        *          *         
       1008 TCCTTCTCAGCGTCTCATCGGGAAGATG----C-TCACTGTTTCAATCCGTTTCTTTGTATCTCA
         65 TTCTTCTCAGTGTCTCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCA

             *     * *
       1068 TTAGGAAGAT
        130 TCAGGAATAC

                                                                             
       1078 GAATCTGGTTCACTTCTCCGTATCTCATCAGGAAGATTTGCTCT-CTTCGAGCCTCGTTTGGGTT
          1 GAATCTGGTTCACTTCTCCGTATCTCATCAGGAAGATTTGCT-TGCTTCGAGCCTCGTTTGGGTT

                                                    *                        
       1142 TTCTTCTCAGTGTCTCATCAGGAAGATGATCCCATCACTGCTTCGATCCGTTTCTCTGTATCTCA
         65 TTCTTCTCAGTGTCTCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCA

                      
       1207 TCAGGAATAC
        130 TCAGGAATAC

                  *   *      *                          *         *     *    
       1217 GAATCTAGTTTACTTCTTCGTATCTCATCAGGAAGATTTGCTTGTTTCGAGCCTTGTTTGAGTTT
          1 GAATCTGGTTCACTTCTCCGTATCTCATCAGGAAGATTTGCTTGCTTCGAGCCTCGTTTGGGTTT

                    *                                                        
       1282 TCTTCTCAATGTCTCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCAT
         66 TCTTCTCAGTGTCTCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCAT

                     
       1347 CAGGAATAC
        131 CAGGAATAC

                               
       1356 GAATCTGGTTCACTTCTCC
          1 GAATCTGGTTCACTTCTCC


Statistics
Matches: 262,  Mismatches: 28, Indels: 10
        0.87            0.09        0.03

Matches are distributed among these distances:
 134   54  0.21
 135   26  0.10
 138    2  0.01
 139  180  0.69

ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37


Consensus pattern (139 bp):   
GAATCTGGTTCACTTCTCCGTATCTCATCAGGAAGATTTGCTTGCTTCGAGCCTCGTTTGGGTTT
TCTTCTCAGTGTCTCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCAT
CAGGAATAC
Done.