Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002786.1 Kokia drynarioides strain JFW-HI SEQ_115117, 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: 2750
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25


Found at i:631 original size:17 final size:17

Alignment explanation


    Indices: 609--657  Score: 57
    Period size: 17  Copynumber: 3.0  Consensus size: 17

        599 CGGTTTTCAT

                             
        609 AATATTTATTAATAATA
          1 AATATTTATTAATAATA

                      **     
        626 AATATTTATTTTTAAT-
          1 AATATTTATTAATAATA

                 *           
        642 AATA-ATATTAATAATA
          1 AATATTTATTAATAATA

        658 TTAATGAATA


Statistics
Matches: 26,  Mismatches: 5, Indels: 3
        0.76            0.15        0.09

Matches are distributed among these distances:
  15    8  0.31
  16    4  0.15
  17   14  0.54

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (17 bp):   
AATATTTATTAATAATA

Found at i:655 original size:9 final size:9

Alignment explanation


    Indices: 641--674  Score: 50
    Period size: 9  Copynumber: 3.7  Consensus size: 9

        631 TTATTTTTAA

                     
        641 TAATAATAT
          1 TAATAATAT

                     
        650 TAATAATAT
          1 TAATAATAT

                     *
        659 TAATGAATAA
          1 TAAT-AATAT

                  
        669 TAATAA
          1 TAATAA

        675 AAAAAACGAA


Statistics
Matches: 23,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
   9   15  0.65
  10    8  0.35

ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38


Consensus pattern (9 bp):   
TAATAATAT

Found at i:903 original size:21 final size:23

Alignment explanation


    Indices: 873--914  Score: 61
    Period size: 22  Copynumber: 1.9  Consensus size: 23

        863 GGGGAAAACC

                         *         
        873 GTTTGGATCTAG-GCTAGATCTG
          1 GTTTGGATCTAGACCTAGATCTG

                                 
        895 GTTT-GATCTAGACCTAGATC
          1 GTTTGGATCTAGACCTAGATC

        915 CATTTTTTTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  21    7  0.39
  22   11  0.61

ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36


Consensus pattern (23 bp):   
GTTTGGATCTAGACCTAGATCTG

Done.