Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001172.1 Kokia drynarioides strain JFW-HI SEQ_112498, 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: 6609
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36

Warning! 18 characters in sequence are not A, C, G, or T


Found at i:875 original size:12 final size:12

Alignment explanation


    Indices: 860--893  Score: 50
    Period size: 12  Copynumber: 2.8  Consensus size: 12

        850 TGTTTACACT

                        
        860 TTGCCTTTGCCC
          1 TTGCCTTTGCCC

                 *      
        872 TTGCCCTTGCCC
          1 TTGCCTTTGCCC

                      
        884 TTGCCCTTTG
          1 TTG-CCTTTG

        894 TCTTTCAAAT


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  12   14  0.74
  13    5  0.26

ACGTcount: A:0.00, C:0.41, G:0.18, T:0.41


Consensus pattern (12 bp):   
TTGCCTTTGCCC

Found at i:3638 original size:30 final size:31

Alignment explanation


    Indices: 3604--3677  Score: 89
    Period size: 30  Copynumber: 2.5  Consensus size: 31

       3594 TCTTGACATT

                  *          *        *    
       3604 AATTTTTAAAAATTATAGA-GGTTTAGTTAA
          1 AATTTTAAAAAATTATAAAGGGTTTAATTAA

                 *       *                 
       3634 AATTTCAAAAAA-AATAAAGGGTTTAATTAA
          1 AATTTTAAAAAATTATAAAGGGTTTAATTAA

                          
       3664 AATTTTAAAAAATT
          1 AATTTTAAAAAATT

       3678 TGAAAGCTTA


Statistics
Matches: 35,  Mismatches: 7, Indels: 3
        0.78            0.16        0.07

Matches are distributed among these distances:
  29    4  0.11
  30   31  0.89

ACGTcount: A:0.51, C:0.01, G:0.09, T:0.38


Consensus pattern (31 bp):   
AATTTTAAAAAATTATAAAGGGTTTAATTAA
Done.