Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010713.1 Kokia drynarioides strain JFW-HI SEQ_125663, 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: 17793
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:905 original size:20 final size:20

Alignment explanation


    Indices: 882--926  Score: 56
    Period size: 20  Copynumber: 2.2  Consensus size: 20

        872 AAATAATTAA

                                 
        882 TTTAATCATTAAATGATAT-G
          1 TTTAATC-TTAAATGATATAG

                      *   *     
        902 TTTAATCTTATATGGTATAG
          1 TTTAATCTTAAATGATATAG

                 
        922 TTTAA
          1 TTTAA

        927 AGTGAAAATT


Statistics
Matches: 22,  Mismatches: 2, Indels: 2
        0.85            0.08        0.08

Matches are distributed among these distances:
  19    9  0.41
  20   13  0.59

ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49


Consensus pattern (20 bp):   
TTTAATCTTAAATGATATAG

Found at i:1696 original size:21 final size:21

Alignment explanation


    Indices: 1634--1700  Score: 73
    Period size: 21  Copynumber: 3.1  Consensus size: 21

       1624 TTTGTGTATT

                                 
       1634 TTATAAAGTTATGA-AAAAAA
          1 TTATAAAGTTATGATAAAAAA

                  * *      *        
       1654 TTATATTATTTAAATCATAAAAAA
          1 TTATA-AAGTT--ATGATAAAAAA

                                 
       1678 TTATAAAGTTATGATAAAAAA
          1 TTATAAAGTTATGATAAAAAA

              
       1699 TT
          1 TT

       1701 TATTATAAAA


Statistics
Matches: 37,  Mismatches: 6, Indels: 7
        0.74            0.12        0.14

Matches are distributed among these distances:
  20    5  0.14
  21   15  0.41
  23    6  0.16
  24   11  0.30

ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37


Consensus pattern (21 bp):   
TTATAAAGTTATGATAAAAAA

Found at i:4169 original size:23 final size:24

Alignment explanation


    Indices: 4131--4175  Score: 74
    Period size: 23  Copynumber: 1.9  Consensus size: 24

       4121 ACTTCATACT

                                    
       4131 TTCCAAAAAAAACCCTAAATCACC
          1 TTCCAAAAAAAACCCTAAATCACC

                    *             
       4155 TTCC-AAATAAACCCTAAATCA
          1 TTCCAAAAAAAACCCTAAATCA

       4176 ATTTAGTAAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 1
        0.91            0.05        0.05

Matches are distributed among these distances:
  23   16  0.80
  24    4  0.20

ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20


Consensus pattern (24 bp):   
TTCCAAAAAAAACCCTAAATCACC
Done.