Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007110.1 Kokia drynarioides strain JFW-HI SEQ_121720, 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: 1905
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32


Found at i:1660 original size:11 final size:10

Alignment explanation


    Indices: 1644--1690  Score: 58
    Period size: 11  Copynumber: 4.5  Consensus size: 10

       1634 TAGCAATATA

                      
       1644 TTTTTTTCTT
          1 TTTTTTTCTT

                       
       1654 CTTTTTTTCTT
          1 -TTTTTTTCTT

               *       
       1665 TTCCTTTTCTT
          1 TT-TTTTTCTT

             *        
       1676 TCTTTTTCTT
          1 TTTTTTTCTT

                 
       1686 TTTTT
          1 TTTTT

       1691 AAGTGACTGA


Statistics
Matches: 31,  Mismatches: 4, Indels: 3
        0.82            0.11        0.08

Matches are distributed among these distances:
  10   13  0.42
  11   18  0.58

ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83


Consensus pattern (10 bp):   
TTTTTTTCTT

Found at i:1672 original size:22 final size:21

Alignment explanation


    Indices: 1647--1687  Score: 64
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1637 CAATATATTT

                     *            
       1647 TTTTCTTCTTTTTTTCTTTTCC
          1 TTTTCTT-TCTTTTTCTTTTCC

                               
       1669 TTTTCTTTCTTTTTCTTTT
          1 TTTTCTTTCTTTTTCTTTT

       1688 TTTAAGTGAC


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  21   11  0.61
  22    7  0.39

ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80


Consensus pattern (21 bp):   
TTTTCTTTCTTTTTCTTTTCC

Found at i:1679 original size:15 final size:14

Alignment explanation


    Indices: 1654--1690  Score: 56
    Period size: 15  Copynumber: 2.6  Consensus size: 14

       1644 TTTTTTTCTT

                          
       1654 CTTTTTTTCTTTTC
          1 CTTTTTTTCTTTTC

                          *
       1668 CTTTTCTTTCTTTTT
          1 CTTTT-TTTCTTTTC

                    
       1683 CTTTTTTT
          1 CTTTTTTT

       1691 AAGTGACTGA


Statistics
Matches: 21,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  14    8  0.38
  15   13  0.62

ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81


Consensus pattern (14 bp):   
CTTTTTTTCTTTTC

Found at i:1688 original size:22 final size:22

Alignment explanation


    Indices: 1647--1689  Score: 59
    Period size: 23  Copynumber: 1.9  Consensus size: 22

       1637 CAATATATTT

                         *        
       1647 TTTTCTTCTTTTTTTCTTTTCC
          1 TTTTCTTCTTTTTCTCTTTTCC

                            *    
       1669 TTTTCTTTCTTTTTCTTTTTT
          1 TTTTC-TTCTTTTTCTCTTTT

       1690 TAAGTGACTG


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  22    5  0.28
  23   13  0.72

ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81


Consensus pattern (22 bp):   
TTTTCTTCTTTTTCTCTTTTCC
Done.