Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012520.1 Kokia drynarioides strain JFW-HI SEQ_127527, 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: 7022
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36


Found at i:2077 original size:15 final size:15

Alignment explanation


    Indices: 2038--2071  Score: 50
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       2028 ACCTTTAAGT

                   *  *    
       2038 CCAAACCAAAGTGAA
          1 CCAAACCCAATTGAA

                           
       2053 CCAAACCCAATTGAA
          1 CCAAACCCAATTGAA

                
       2068 CCAA
          1 CCAA

       2072 GTCCAAACCA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.50, C:0.32, G:0.09, T:0.09


Consensus pattern (15 bp):   
CCAAACCCAATTGAA

Found at i:3186 original size:22 final size:24

Alignment explanation


    Indices: 3159--3204  Score: 60
    Period size: 22  Copynumber: 2.0  Consensus size: 24

       3149 TACAAACTTA

                                    
       3159 TATTATATT-ATTTT-ATTATTAT
          1 TATTATATTGATTTTGATTATTAT

                  *                 
       3181 TATTATTTTGATTTTGGATTATTA
          1 TATTATATTGATTTT-GATTATTA

       3205 ATATACTTTG


Statistics
Matches: 20,  Mismatches: 1, Indels: 3
        0.83            0.04        0.12

Matches are distributed among these distances:
  22    8  0.40
  23    5  0.25
  25    7  0.35

ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65


Consensus pattern (24 bp):   
TATTATATTGATTTTGATTATTAT

Found at i:3817 original size:24 final size:25

Alignment explanation


    Indices: 3789--3845  Score: 73
    Period size: 24  Copynumber: 2.3  Consensus size: 25

       3779 AAATTAATTT

                   *                  
       3789 AAATCTAGAATCTAA-TTCAA-CTTA
          1 AAATCTAAAATC-AACTTCAAGCTTA

                             *       
       3813 AAATCTAAAATCAACTTTAAGCTTA
          1 AAATCTAAAATCAACTTCAAGCTTA

                    
       3838 AAATCTAA
          1 AAATCTAA

       3846 TTACACTTAA


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  23    2  0.07
  24   15  0.52
  25   12  0.41

ACGTcount: A:0.49, C:0.16, G:0.04, T:0.32


Consensus pattern (25 bp):   
AAATCTAAAATCAACTTCAAGCTTA
Done.