Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002201.1 Kokia drynarioides strain JFW-HI SEQ_114185, 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: 1769
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33


Found at i:755 original size:41 final size:41

Alignment explanation


    Indices: 707--847  Score: 185
    Period size: 41  Copynumber: 3.4  Consensus size: 41

        697 TGTTCTCAAC

                                                      
        707 TCGAGACATGAGTCTTCCTTAATCAAAAT-TTCATTCTCATT
          1 TCGAGACATGAGTCTTCCTTAATCAAAATATT-ATTCTCATT

              *     *        *   *   *      *        
        748 TCAAGACACGAGTCTTCTTTATTCATAATATTGTTCTCATT
          1 TCGAGACATGAGTCTTCCTTAATCAAAATATTATTCTCATT

                       *         *       *           
        789 TCGAGACATGATTCTTCCTTAGTCAAAATCTTATTCTCATT
          1 TCGAGACATGAGTCTTCCTTAATCAAAATATTATTCTCATT

                              
        830 TCGAGACATGAGTCTTCC
          1 TCGAGACATGAGTCTTCC

        848 ATTTATACAA


Statistics
Matches: 84,  Mismatches: 15, Indels: 2
        0.83            0.15        0.02

Matches are distributed among these distances:
  41   82  0.98
  42    2  0.02

ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40


Consensus pattern (41 bp):   
TCGAGACATGAGTCTTCCTTAATCAAAATATTATTCTCATT

Found at i:825 original size:82 final size:82

Alignment explanation


    Indices: 696--893  Score: 233
    Period size: 82  Copynumber: 2.4  Consensus size: 82

        686 AACCATATTC

                                                                             
        696 TTGTTCTCAACTCGAGACATGAGTCTTCCTTAATCAAAATTTCATTCTCATTTCAAGACACGAGT
          1 TTGTTCTCAACTCGAGACATGAGTCTTCCTTAATCAAAATTTCATTCTCATTTCAAGACACGAGT

                             
        761 CTTCTTTATTCATAATA
         66 CTTCTTTATTCATAATA

                     **           *         *                      *     *   
        778 TTGTTCTCATTTCGAGACATGATTCTTCCTTAGTCAAAATCTT-ATTCTCATTTCGAGACATGAG
          1 TTGTTCTCAACTCGAGACATGAGTCTTCCTTAATCAAAAT-TTCATTCTCATTTCAAGACACGAG

                           *    
        842 TCTTCCATTTA-T-ACAAT-
         65 TCTT-C-TTTATTCATAATA

              *           *                    
        859 TTCTCATGCTCAACCCGAGACATGAGTCTTCCTTA
          1 TTGT--T-CTCAACTCGAGACATGAGTCTTCCTTA

        894 TTCATACACC


Statistics
Matches: 98,  Mismatches: 12, Indels: 10
        0.82            0.10        0.08

Matches are distributed among these distances:
  81    3  0.03
  82   63  0.64
  83    5  0.05
  84   27  0.28

ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39


Consensus pattern (82 bp):   
TTGTTCTCAACTCGAGACATGAGTCTTCCTTAATCAAAATTTCATTCTCATTTCAAGACACGAGT
CTTCTTTATTCATAATA
Done.