Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009573.1 Kokia drynarioides strain JFW-HI SEQ_124287, 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, 640

Length: 1068
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37


Found at i:721 original size:21 final size:21

Alignment explanation


    Indices: 682--721  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        672 AAAAATTTTC

                *      *  *      
        682 AATTTGAGTTGTGTGAAATGA
          1 AATTCGAGTTGAGTCAAATGA

                               
        703 AATTCGAGTTGAGTCAAAT
          1 AATTCGAGTTGAGTCAAAT

        722 AAAGTGAAAT


Statistics
Matches: 16,  Mismatches: 3, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   16  1.00

ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35


Consensus pattern (21 bp):   
AATTCGAGTTGAGTCAAATGA

Found at i:967 original size:11 final size:10

Alignment explanation


    Indices: 953--993  Score: 55
    Period size: 11  Copynumber: 3.9  Consensus size: 10

        943 TTTATCTTTT

                       
        953 TTTATATATTC
          1 TTTATA-ATTC

                *     
        964 TTTAGAATTC
          1 TTTATAATTC

                       
        974 TTTATAAATTC
          1 TTTAT-AATTC

                     
        985 TTTATAATT
          1 TTTATAATT

        994 TTTTTTAAAA


Statistics
Matches: 27,  Mismatches: 2, Indels: 3
        0.84            0.06        0.09

Matches are distributed among these distances:
  10   12  0.44
  11   15  0.56

ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59


Consensus pattern (10 bp):   
TTTATAATTC

Found at i:977 original size:21 final size:21

Alignment explanation


    Indices: 953--1002  Score: 64
    Period size: 21  Copynumber: 2.4  Consensus size: 21

        943 TTTATCTTTT

                  *              
        953 TTTATATATTCTTTAGAATTC
          1 TTTATAAATTCTTTAGAATTC

                           *    *
        974 TTTATAAATTCTTTATAATTT
          1 TTTATAAATTCTTTAGAATTC

               *    
        995 TTTTTAAA
          1 TTTATAAA

       1003 AATATTAATT


Statistics
Matches: 25,  Mismatches: 4, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   25  1.00

ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60


Consensus pattern (21 bp):   
TTTATAAATTCTTTAGAATTC
Done.