Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007158.1 Kokia drynarioides strain JFW-HI SEQ_121770, 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: 3459
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31


Found at i:723 original size:15 final size:14

Alignment explanation


    Indices: 669--733  Score: 54
    Period size: 12  Copynumber: 5.0  Consensus size: 14

        659 CGGCACAAAA

                    *     
        669 TCTTCTTCATTTTC
          1 TCTTCTTCCTTTTC

                          
        683 T-TTC-TCCTTTTC
          1 TCTTCTTCCTTTTC

                           
        695 T-TCTCTTCC--TTC
          1 TCT-TCTTCCTTTTC

                           
        707 T-TT-TTCTCTTTTC
          1 TCTTCTTC-CTTTTC

                          
        720 TCTTCTTCCTTTTC
          1 TCTTCTTCCTTTTC

        734 AACACCCATA


Statistics
Matches: 43,  Mismatches: 1, Indels: 14
        0.74            0.02        0.24

Matches are distributed among these distances:
  10    3  0.07
  11    2  0.05
  12   14  0.33
  13    9  0.21
  14   12  0.28
  15    3  0.07

ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66


Consensus pattern (14 bp):   
TCTTCTTCCTTTTC

Found at i:726 original size:25 final size:26

Alignment explanation


    Indices: 669--733  Score: 82
    Period size: 25  Copynumber: 2.5  Consensus size: 26

        659 CGGCACAAAA

                    *                 
        669 TCTTCTTCATTTTCTTTCTCCTTTTC
          1 TCTTCTTCCTTTTCTTTCTCCTTTTC

                                        
        695 T-TCTCTTCCTTCTT-TTTCT-CTTTTC
          1 TCT-TCTTCCTT-TTCTTTCTCCTTTTC

                          
        720 TCTTCTTCCTTTTC
          1 TCTTCTTCCTTTTC

        734 AACACCCATA


Statistics
Matches: 34,  Mismatches: 1, Indels: 9
        0.77            0.02        0.20

Matches are distributed among these distances:
  24    2  0.06
  25   16  0.47
  26   14  0.41
  27    2  0.06

ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66


Consensus pattern (26 bp):   
TCTTCTTCCTTTTCTTTCTCCTTTTC
Done.