Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006485.1 Kokia drynarioides strain JFW-HI SEQ_121068, 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: 7643
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34


Found at i:1958 original size:39 final size:39

Alignment explanation


    Indices: 1904--2009  Score: 149
    Period size: 39  Copynumber: 2.7  Consensus size: 39

       1894 GAATTGGTAG

                 *                                 
       1904 TGACATTGTAAACACTGCAATATTGTTACAGACTAGCAA
          1 TGACACTGTAAACACTGCAATATTGTTACAGACTAGCAA

                                  *           *   *
       1943 TGACACTGTAAACACTGCAATAATGTTACAGACTGGCAG
          1 TGACACTGTAAACACTGCAATATTGTTACAGACTAGCAA

                   *    *    *          
       1982 TGACACTATAAATACTGTAATATTGTTA
          1 TGACACTGTAAACACTGCAATATTGTTA

       2010 TGGAATTAGT


Statistics
Matches: 59,  Mismatches: 8, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  39   59  1.00

ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29


Consensus pattern (39 bp):   
TGACACTGTAAACACTGCAATATTGTTACAGACTAGCAA

Found at i:2686 original size:26 final size:26

Alignment explanation


    Indices: 2652--2703  Score: 68
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       2642 GTACTATGTT

                *          *    *     
       2652 AGCTTATCTATGATTTAACTGTTATC
          1 AGCTGATCTATGATTGAACTATTATC

                     *                
       2678 AGCTGATCTCTGATTGAACTATTATC
          1 AGCTGATCTATGATTGAACTATTATC

       2704 TGATGTAATA


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  26   22  1.00

ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42


Consensus pattern (26 bp):   
AGCTGATCTATGATTGAACTATTATC

Found at i:6435 original size:16 final size:16

Alignment explanation


    Indices: 6411--6445  Score: 52
    Period size: 16  Copynumber: 2.2  Consensus size: 16

       6401 GTTCTTCTTA

                *    *      
       6411 TTTCTTTTTTTTTTGG
          1 TTTCCTTTTCTTTTGG

                            
       6427 TTTCCTTTTCTTTTGG
          1 TTTCCTTTTCTTTTGG

               
       6443 TTT
          1 TTT

       6446 TTTGTGATTA


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

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.00, C:0.11, G:0.11, T:0.77


Consensus pattern (16 bp):   
TTTCCTTTTCTTTTGG
Done.