Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003004.1 Kokia drynarioides strain JFW-HI SEQ_115501, 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: 1761
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30


Found at i:139 original size:53 final size:52

Alignment explanation


    Indices: 52--201  Score: 174
    Period size: 53  Copynumber: 2.8  Consensus size: 52

         42 TTATTACAGA

                   *             *  *    *                       
         52 CCATGTGTCTTAAAACAATATGCATACACTCTGACATACGCCCATGTATCAGC
          1 CCATGTGCCTTAAAAC-ATATACACACACCCTGACATACGCCCATGTATCAGC

                                                *          *     
        105 CCATGTGCCTTAAAACAGTATACACACACCCTGACACACGCCCATGTGTCAGC
          1 CCATGTGCCTTAAAACA-TATACACACACCCTGACATACGCCCATGTATCAGC

              *       **                                
        158 CCGTGTGCCTCCAAACTATATACACACACACCCTGACATACGCC
          1 CCATGTGCCTTAAAAC-ATAT--ACACACACCCTGACATACGCC

        202 TGTGTGCCAA


Statistics
Matches: 83,  Mismatches: 10, Indels: 6
        0.84            0.10        0.06

Matches are distributed among these distances:
  52    1  0.01
  53   61  0.73
  54    1  0.01
  55   20  0.24

ACGTcount: A:0.31, C:0.35, G:0.13, T:0.21


Consensus pattern (52 bp):   
CCATGTGCCTTAAAACATATACACACACCCTGACATACGCCCATGTATCAGC

Found at i:206 original size:53 final size:53

Alignment explanation


    Indices: 63--220  Score: 165
    Period size: 53  Copynumber: 2.9  Consensus size: 53

         53 CATGTGTCTT

                  *   *  *    *                 *       *       *
         63 AAAACAATATGCATACACTCTGACATACGCCCATGTATCAGCCCATGTGCCTT
          1 AAAACAGTATACACACACCCTGACATACGCCCATGTGTCAGCCCGTGTGCCTC

                                     *                           
        116 AAAACAGTATACACACACCCTGACACACGCCCATGTGTCAGCCCGTGTGCCTC
          1 AAAACAGTATACACACACCCTGACATACGCCCATGTGTCAGCCCGTGTGCCTC

            *                                 **    *  *         
        169 CAAACTA-TATACACACACACCCTGACATACGCCTGTGTGCCAACCCGTGTGC
          1 AAAAC-AGTAT--ACACACACCCTGACATACGCCCATGTGTCAGCCCGTGTGC

        221 TTCATCTTAT


Statistics
Matches: 88,  Mismatches: 14, Indels: 4
        0.83            0.13        0.04

Matches are distributed among these distances:
  53   52  0.59
  54    1  0.01
  55   35  0.40

ACGTcount: A:0.30, C:0.35, G:0.15, T:0.20


Consensus pattern (53 bp):   
AAAACAGTATACACACACCCTGACATACGCCCATGTGTCAGCCCGTGTGCCTC
Done.