Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001770.1 Kokia drynarioides strain JFW-HI SEQ_113494, 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: 2151
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31


Found at i:1067 original size:29 final size:28

Alignment explanation


    Indices: 1031--1242  Score: 166
    Period size: 30  Copynumber: 7.3  Consensus size: 28

       1021 AATATTACCG

                              *          
       1031 TTTTACCCCCGAA-TTCCCAAAATCCCAT
          1 TTTTA-CCCCGAACTTCCAAAAATCCCAT

                      *               *   *
       1059 TTTTGACCCCAAACTTTCCAAAAATTACC-G
          1 TTTT-ACCCCGAAC-TTCCAAAAA-TCCCAT

                                          
       1089 TTTTACCCTCGAA-TTCCCAAAAATCCCAT
          1 TTTTACCC-CGAACTT-CCAAAAATCCCAT

                                     **  *
       1118 TTTTGACCCCGAACCTTCCAAAAATTACAA
          1 TTTT-ACCCCGAA-CTTCCAAAAATCCCAT

                     *  *                
       1148 TTTTACCCCTAAATTCCTAAAAATCCCAT
          1 TTTTACCCCGAACTTCC-AAAAATCCCAT

                                      *    
       1177 TTTTGACCCCGAACCTTCCAAAAATTACCA-
          1 TTTT-ACCCCGAA-CTTCCAAAAA-TCCCAT

                                          
       1207 TTTTATCCCCGAACTTCC-AAAATCACCA-
          1 TTTTA-CCCCGAACTTCCAAAAATC-CCAT

                    
       1235 TTTTACCC
          1 TTTTACCC

       1243 TCGAGTTGCT


Statistics
Matches: 149,  Mismatches: 19, Indels: 33
        0.74            0.09        0.16

Matches are distributed among these distances:
  27    4  0.03
  28   31  0.21
  29   45  0.30
  30   56  0.38
  31   13  0.09

ACGTcount: A:0.32, C:0.33, G:0.04, T:0.30


Consensus pattern (28 bp):   
TTTTACCCCGAACTTCCAAAAATCCCAT

Found at i:1140 original size:59 final size:57

Alignment explanation


    Indices: 1012--1238  Score: 303
    Period size: 59  Copynumber: 3.9  Consensus size: 57

       1002 GAGGTCCCTA

                       *      *                                      *
       1012 AACCTTCCAAATATTACCGTTTTACCCCCGAATTCCCAAAATCCCATTTTTGACCCCA
          1 AACCTTCCAAAAATTACCATTTTA-CCCCGAATTCCCAAAATCCCATTTTTGACCCCG

               *              *                                        
       1070 AACTTTCCAAAAATTACCGTTTTACCCTCGAATTCCCAAAAATCCCATTTTTGACCCCG
          1 AACCTTCCAAAAATTACCATTTTACCC-CGAATTCCC-AAAATCCCATTTTTGACCCCG

                             *           *       *                     
       1129 AACCTTCCAAAAATTACAATTTTACCCCTAAATTCCTAAAAATCCCATTTTTGACCCCG
          1 AACCTTCCAAAAATTACCATTTTACCCC-GAATTCC-CAAAATCCCATTTTTGACCCCG

                                                                
       1188 AACCTTCCAAAAATTACCATTTTATCCCCGAACTT-CCAAAATCACCATTTT
          1 AACCTTCCAAAAATTACCATTTTA-CCCCGAA-TTCCCAAAATC-CCATTTT

       1239 ACCCTCGAGT


Statistics
Matches: 151,  Mismatches: 11, Indels: 13
        0.86            0.06        0.07

Matches are distributed among these distances:
  57    3  0.02
  58   38  0.25
  59  104  0.69
  60    6  0.04

ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30


Consensus pattern (57 bp):   
AACCTTCCAAAAATTACCATTTTACCCCGAATTCCCAAAATCCCATTTTTGACCCCG
Done.