Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001683.1 Kokia drynarioides strain JFW-HI SEQ_113354, 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, 835

Length: 1392
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34


Found at i:912 original size:29 final size:29

Alignment explanation


    Indices: 879--1004  Score: 108
    Period size: 30  Copynumber: 4.2  Consensus size: 29

        869 AAAAATTTTG

                                       *  
        879 TTTTTACCCCCCGAACTTCTAAAAATCTCA
          1 TTTTTA-CCCCCGAACTTCTAAAAATCCCA

                     *    *              
        909 TTTTTACCCTCGAATTTCTAAAAATCCCA
          1 TTTTTACCCCCGAACTTCTAAAAATCCCA

                       **      *      **  
        938 TTTTTGACCCCAAAACTTCCAAAAATTTCA
          1 TTTTT-ACCCCCGAACTTCTAAAAATCCCA

                       **      *      **  
        968 TTTTTTACCCCAAAACTTCCAAAAATTTCA
          1 -TTTTTACCCCCGAACTTCTAAAAATCCCA

                   
        998 TTTTTAC
          1 TTTTTAC

       1005 TCTCGAAACT


Statistics
Matches: 84,  Mismatches: 10, Indels: 5
        0.85            0.10        0.05

Matches are distributed among these distances:
  29   32  0.38
  30   47  0.56
  31    5  0.06

ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37


Consensus pattern (29 bp):   
TTTTTACCCCCGAACTTCTAAAAATCCCA

Found at i:1014 original size:30 final size:29

Alignment explanation


    Indices: 892--1004  Score: 129
    Period size: 30  Copynumber: 3.8  Consensus size: 29

        882 TTACCCCCCG

                  *                      *
        892 AACTTCTAAAAATCTCATTTTTACCCTC-G
          1 AACTTCCAAAAATCTCATTTTTACCC-CAA

              *   *       *               
        921 AATTTCTAAAAATCCCATTTTTGACCCCAA
          1 AACTTCCAAAAATCTCATTTTT-ACCCCAA

                         *                
        951 AACTTCCAAAAATTTCATTTTTTACCCCAA
          1 AACTTCCAAAAATCTCA-TTTTTACCCCAA

                         *          
        981 AACTTCCAAAAATTTCATTTTTAC
          1 AACTTCCAAAAATCTCATTTTTAC

       1005 TCTCGAAACT


Statistics
Matches: 74,  Mismatches: 7, Indels: 6
        0.85            0.08        0.07

Matches are distributed among these distances:
  29   28  0.38
  30   41  0.55
  31    5  0.07

ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37


Consensus pattern (29 bp):   
AACTTCCAAAAATCTCATTTTTACCCCAA

Done.