Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009479.1 Kokia drynarioides strain JFW-HI SEQ_124187, 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: 8524
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33


Found at i:3917 original size:23 final size:23

Alignment explanation


    Indices: 3891--3969  Score: 113
    Period size: 23  Copynumber: 3.4  Consensus size: 23

       3881 AAGACGTTTC

                *       *          
       3891 GTGCCCTCTGATCAGCACTTTGT
          1 GTGCTCTCTGATTAGCACTTTGT

                                   
       3914 GTGCTCTCTGATTAGCACTTTGT
          1 GTGCTCTCTGATTAGCACTTTGT

                      *        *   
       3937 GTGCTCTCTGTTTAGCACTGTGT
          1 GTGCTCTCTGATTAGCACTTTGT

            *         
       3960 ATGCTCTCTG
          1 GTGCTCTCTG

       3970 TTTCCCAGCA


Statistics
Matches: 51,  Mismatches: 5, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  23   51  1.00

ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41


Consensus pattern (23 bp):   
GTGCTCTCTGATTAGCACTTTGT

Found at i:3989 original size:25 final size:23

Alignment explanation


    Indices: 3904--4018  Score: 119
    Period size: 23  Copynumber: 5.0  Consensus size: 23

       3894 CCCTCTGATC

                                *  
       3904 AGCACTTTGTGTGCTCTCTGATT
          1 AGCACTTTGTGTGCTCTCTGTTT

                                   
       3927 AGCACTTTGTGTGCTCTCTGTTT
          1 AGCACTTTGTGTGCTCTCTGTTT

                  *   *            
       3950 AGCACTGTGTATGCTCTCTGTTT
          1 AGCACTTTGTGTGCTCTCTGTTT

                       *              
       3973 CCCAGCAC-TTATGTGCTCTCTG-TT
          1 ---AGCACTTTGTGTGCTCTCTGTTT

             **         *          
       3997 ATTACTTTG-GTACTCTCTGTTT
          1 AGCACTTTGTGTGCTCTCTGTTT

       4019 GTTCCGTATA


Statistics
Matches: 77,  Mismatches: 10, Indels: 11
        0.79            0.10        0.11

Matches are distributed among these distances:
  21   12  0.16
  22    4  0.05
  23   43  0.56
  24    2  0.03
  25   11  0.14
  26    5  0.06

ACGTcount: A:0.12, C:0.23, G:0.19, T:0.45


Consensus pattern (23 bp):   
AGCACTTTGTGTGCTCTCTGTTT
Done.