Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007410.1 Kokia drynarioides strain JFW-HI SEQ_122029, 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: 6188
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35


Found at i:4309 original size:2 final size:2

Alignment explanation


    Indices: 4302--4327  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       4292 TTCATGATAA

                                                  
       4302 AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT

       4328 GTTTTGGTAT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:6079 original size:20 final size:21

Alignment explanation


    Indices: 6056--6099  Score: 72
    Period size: 20  Copynumber: 2.1  Consensus size: 21

       6046 AAATTACAAA

                                 
       6056 AAAAAATTCAAAAT-AATTTT
          1 AAAAAATTCAAAATAAATTTT

                      *          
       6076 AAAAAATTCATAATAAATTTT
          1 AAAAAATTCAAAATAAATTTT

               
       6097 AAA
          1 AAA

       6100 TTTTAAAATA


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  20   13  0.59
  21    9  0.41

ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34


Consensus pattern (21 bp):   
AAAAAATTCAAAATAAATTTT

Found at i:6144 original size:26 final size:27

Alignment explanation


    Indices: 6070--6144  Score: 100
    Period size: 28  Copynumber: 2.8  Consensus size: 27

       6060 AATTCAAAAT

                      *   *             
       6070 AATTTTAAAAAATTCATAATAAATTTTA
          1 AATTTTAAAATATTTATAA-AAATTTTA

                                       
       6098 AATTTTAAAATATTTATAAAAATTTTA
          1 AATTTTAAAATATTTATAAAAATTTTA

                    *             
       6125 AATTTT-ATATATTT-TAAAAA
          1 AATTTTAAAATATTTATAAAAA

       6145 CTTATAAAAA


Statistics
Matches: 44,  Mismatches: 3, Indels: 3
        0.88            0.06        0.06

Matches are distributed among these distances:
  25    6  0.14
  26    7  0.16
  27   14  0.32
  28   17  0.39

ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47


Consensus pattern (27 bp):   
AATTTTAAAATATTTATAAAAATTTTA

Done.