Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012083.1 Kokia drynarioides strain JFW-HI SEQ_127082, 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: 4549
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.34

Warning! 113 characters in sequence are not A, C, G, or T


Found at i:784 original size:20 final size:19

Alignment explanation


    Indices: 741--784  Score: 52
    Period size: 19  Copynumber: 2.3  Consensus size: 19

        731 GGACTTTTAA

                     *    *    
        741 TTTAATTTTTATTTGAGCT
          1 TTTAATTTTAATTTAAGCT

                              * 
        760 TTTAATTTTAATATTAAGTT
          1 TTTAATTTTAAT-TTAAGCT

                 
        780 TTTAA
          1 TTTAA

        785 ATCCATTCAA


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  19   11  0.52
  20   10  0.48

ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61


Consensus pattern (19 bp):   
TTTAATTTTAATTTAAGCT

Found at i:846 original size:20 final size:19

Alignment explanation


    Indices: 803--866  Score: 71
    Period size: 20  Copynumber: 3.5  Consensus size: 19

        793 AAATTTGATT

                               
        803 AAATTTAAATTT--AAAGA
          1 AAATTTAAATTTAAAAAGA

                               
        820 AAATTTAAATTTAAAAAGA
          1 AAATTTAAATTTAAAAAGA

             *          *      *
        839 TGAATTTAAATTCAAAAA-T
          1 -AAATTTAAATTTAAAAAGA

                     
        858 AAATTTAAA
          1 AAATTTAAA

        867 CCAATTTAAA


Statistics
Matches: 40,  Mismatches: 4, Indels: 5
        0.82            0.08        0.10

Matches are distributed among these distances:
  17   12  0.30
  18    8  0.20
  19    5  0.12
  20   15  0.38

ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34


Consensus pattern (19 bp):   
AAATTTAAATTTAAAAAGA

Found at i:1308 original size:37 final size:37

Alignment explanation


    Indices: 1258--1367  Score: 130
    Period size: 37  Copynumber: 3.0  Consensus size: 37

       1248 CATATCACTT

                  *          *  *                
       1258 GTTTTGATCCACTTCTCTGTGTTTCATCAGGAAGATG
          1 GTTTTGGTCCACTTCTCAGTATTTCATCAGGAAGATG

                    *      * *                 * 
       1295 GTTTTGGTTCACTTCCCCGTATTTCATCAGGAAGACG
          1 GTTTTGGTCCACTTCTCAGTATTTCATCAGGAAGATG

            **                    *             
       1332 AATTTGGTCCACTTCTCAGTATCTCATCAGGAAGAT
          1 GTTTTGGTCCACTTCTCAGTATTTCATCAGGAAGAT

       1368 AACCTTTTAT


Statistics
Matches: 60,  Mismatches: 13, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  37   60  1.00

ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36


Consensus pattern (37 bp):   
GTTTTGGTCCACTTCTCAGTATTTCATCAGGAAGATG
Done.