Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007772.1 Kokia drynarioides strain JFW-HI SEQ_122405, 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: 7537
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35


Found at i:830 original size:40 final size:41

Alignment explanation


    Indices: 785--866  Score: 121
    Period size: 41  Copynumber: 2.0  Consensus size: 41

        775 TTGAAACTCA

                                  ***                
        785 TTAAAATTAAATAACATT-ATTTTTAATTTGTTAAATATTT
          1 TTAAAATTAAATAACATTGATTCGAAATTTGTTAAATATTT

                        *                            
        825 TTAAAATTAAATGACATTGATTCGAAATTTGTTAAATATTT
          1 TTAAAATTAAATAACATTGATTCGAAATTTGTTAAATATTT

             
        866 T
          1 T

        867 GTAATTACAT


Statistics
Matches: 37,  Mismatches: 4, Indels: 1
        0.88            0.10        0.02

Matches are distributed among these distances:
  40   17  0.46
  41   20  0.54

ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49


Consensus pattern (41 bp):   
TTAAAATTAAATAACATTGATTCGAAATTTGTTAAATATTT

Found at i:4057 original size:42 final size:43

Alignment explanation


    Indices: 4006--4087  Score: 107
    Period size: 42  Copynumber: 1.9  Consensus size: 43

       3996 ATTTTAGAGC

                                                         
       4006 TTTTAAATTT-TT-TTATGTTTT-TTTATTATATATTTTTTAAAA
          1 TTTTAAATTTCTTATTA-GTTTTCTTTATTATA-ATTTTTTAAAA

                                          *         
       4048 TTTTAAATTTCTTATTAGTTTTCCTTTATTTTAATTTTTT
          1 TTTTAAATTTCTTATTAGTTTT-CTTTATTATAATTTTTT

       4088 GAATTACTAG


Statistics
Matches: 35,  Mismatches: 1, Indels: 6
        0.83            0.02        0.14

Matches are distributed among these distances:
  42   10  0.29
  43    7  0.20
  44   10  0.29
  45    8  0.23

ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70


Consensus pattern (43 bp):   
TTTTAAATTTCTTATTAGTTTTCTTTATTATAATTTTTTAAAA
Done.