Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007564.1 Kokia drynarioides strain JFW-HI SEQ_122192, 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: 9994
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36


Found at i:7829 original size:47 final size:46

Alignment explanation


    Indices: 7769--7884  Score: 146
    Period size: 47  Copynumber: 2.5  Consensus size: 46

       7759 CCTCATTCAC

                                     *    *                 
       7769 CCCCAAAAATCAAAATCTCCCAAAATTTTTTTA-TTCCACCCCTTTTA
          1 CCCCAAAAATCAAAATCTCCCAAAAATTTTGTATTTCC-CCCC-TTTA

                          *                                
       7816 CCCCAAAAATCAAAGTC-CCCTAAAAATTTTGTATTTCCCCCCTTTA
          1 CCCCAAAAATCAAAATCTCCC-AAAAATTTTGTATTTCCCCCCTTTA

                  *                
       7862 CCCCAAGAATCAAAATCCTCCCA
          1 CCCCAAAAATCAAAAT-CTCCCA

       7885 TTTTTCTTGA


Statistics
Matches: 60,  Mismatches: 5, Indels: 8
        0.82            0.07        0.11

Matches are distributed among these distances:
  46   21  0.35
  47   32  0.53
  48    7  0.12

ACGTcount: A:0.34, C:0.34, G:0.03, T:0.28


Consensus pattern (46 bp):   
CCCCAAAAATCAAAATCTCCCAAAAATTTTGTATTTCCCCCCTTTA

Found at i:9267 original size:30 final size:28

Alignment explanation


    Indices: 9214--9270  Score: 78
    Period size: 30  Copynumber: 2.0  Consensus size: 28

       9204 TTAGTAGAAT

                        *               
       9214 ATTTATCTACAAGATAAATATTAAATTA
          1 ATTTATCTACAAAATAAATATTAAATTA

                               *         
       9242 ATTTATACTATCAAAATAAGTATTAAATT
          1 ATTTAT-CTA-CAAAATAAATATTAAATT

       9271 TATTAAAATA


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  28    6  0.24
  29    3  0.12
  30   16  0.64

ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40


Consensus pattern (28 bp):   
ATTTATCTACAAAATAAATATTAAATTA
Done.