Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005342.1 Kokia drynarioides strain JFW-HI SEQ_119301, 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: 2558
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28


Found at i:893 original size:29 final size:29

Alignment explanation


    Indices: 822--1072  Score: 225
    Period size: 30  Copynumber: 8.4  Consensus size: 29

        812 ATTGTTCAAC

                          * * *       *   
        822 AATCCCATTTTTAATCTCGAAACTTCCAAA
          1 AATCCCATTTTT-ACCCCAAAACTTCTAAA

                 *            **          
        852 AATCCTATTTTTTACCCCCGAACTTCTAAA
          1 AATCCCA-TTTTTACCCCAAAACTTCTAAA

                                      *   
        882 AATCCCATTTTTAACCCCAAAACTTCCAAA
          1 AATCCCATTTTT-ACCCCAAAACTTCTAAA

                               *           
        912 AATCCCATTTTTTTACCCCCAAACTTCTAAA
          1 AATCCCA--TTTTTACCCCAAAACTTCTAAA

                  *     *    *        *   
        943 AATCTCAATTTTAACCCTAAAACTTCCAAA
          1 AATC-CCATTTTTACCCCAAAACTTCTAAA

                *                         
        973 AATCTCATTTTTACCCCAAAAACTTCTAAA
          1 AATCCCATTTTTACCCC-AAAACTTCTAAA

                       *    *             
       1003 AATCCCATTTTAACCCTAAAACTT-TGAAA
          1 AATCCCATTTTTACCCCAAAACTTCT-AAA

             * **            **    *     
       1032 AGTTACATTTTTACCCCCGAACTCCTAAA
          1 AATCCCATTTTTACCCCAAAACTTCTAAA

                        
       1061 AATCCCATTTTT
          1 AATCCCATTTTT

       1073 TTACCACGAA


Statistics
Matches: 177,  Mismatches: 36, Indels: 17
        0.77            0.16        0.07

Matches are distributed among these distances:
  28    1  0.01
  29   52  0.29
  30   93  0.53
  31   24  0.14
  32    7  0.04

ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33


Consensus pattern (29 bp):   
AATCCCATTTTTACCCCAAAACTTCTAAA

Found at i:915 original size:60 final size:60

Alignment explanation


    Indices: 822--1072  Score: 285
    Period size: 61  Copynumber: 4.2  Consensus size: 60

        812 ATTGTTCAAC

                          * * *                               *          
        822 AATCCCATTTTTAATCTCGAAACTTCCAAAAATCCTA-TTTTTTACCCCCGAACTTCTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAAT-CTACTTTTTTACCCCCAAACTTCTAAA

                                               * *                       
        882 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTTTTACCCCCAAACTTCTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAAT-CTACTTTTTTACCCCCAAACTTCTAAA

                *  *         *                   *           *           
        943 AATCTCAATTTTAACCCTAAAACTTCCAAAAATCT-CATTTTTACCCCAAAAACTTCTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCTACTTTTTTACCCC-CAAACTTCTAAA

                             *       **    *     *           *    *     
       1003 AATCCCA-TTTTAACCCTAAAACTTTGAAAAGT-TACATTTTTACCCCCGAACTCCTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCTACTTTTTTACCCCCAAACTTCTAAA

                        
       1061 AATCCCATTTTT
          1 AATCCCATTTTT

       1073 TTACCACGAA


Statistics
Matches: 168,  Mismatches: 19, Indels: 9
        0.86            0.10        0.05

Matches are distributed among these distances:
  58   17  0.10
  59   48  0.29
  60   51  0.30
  61   52  0.31

ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33


Consensus pattern (60 bp):   
AATCCCATTTTTAACCCCAAAACTTCCAAAAATCTACTTTTTTACCCCCAAACTTCTAAA

Done.