Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002833.1 Kokia drynarioides strain JFW-HI SEQ_115203, 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, 926

Length: 1544
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35


Found at i:1006 original size:6 final size:6

Alignment explanation


    Indices: 995--1049  Score: 60
    Period size: 6  Copynumber: 9.5  Consensus size: 6

        985 AATTGTTTAA

                            *               *    *                 
        995 AAATTT AAATTT -ATTTT AAATTT AAATGT -ATTTT AAATTT AAATTT
          1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT

              *       
       1041 AAGTTT AAA
          1 AAATTT AAA

       1050 CTTATTATCA


Statistics
Matches: 39,  Mismatches: 8, Indels: 4
        0.76            0.16        0.08

Matches are distributed among these distances:
   5    7  0.18
   6   32  0.82

ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51


Consensus pattern (6 bp):   
AAATTT

Found at i:1015 original size:17 final size:17

Alignment explanation


    Indices: 963--1041  Score: 97
    Period size: 17  Copynumber: 4.6  Consensus size: 17

        953 CAAGCTCCCC

                              
        963 TTTAAATTTATTTTAAGA
          1 TTTAAATTTATTTTAA-A

              *          **   
        981 TTAAAATTGT-TTAAAAA
          1 TTTAAATT-TATTTTAAA

                             
        998 TTTAAATTTATTTTAAA
          1 TTTAAATTTATTTTAAA

                   *         
       1015 TTTAAATGTATTTTAAA
          1 TTTAAATTTATTTTAAA

                      
       1032 TTTAAATTTA
          1 TTTAAATTTA

       1042 AGTTTAAACT


Statistics
Matches: 51,  Mismatches: 8, Indels: 5
        0.80            0.12        0.08

Matches are distributed among these distances:
  16    1  0.02
  17   38  0.75
  18   11  0.22
  19    1  0.02

ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53


Consensus pattern (17 bp):   
TTTAAATTTATTTTAAA

Found at i:1082 original size:17 final size:18

Alignment explanation


    Indices: 1044--1086  Score: 61
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       1034 TAAATTTAAG

                  *           
       1044 TTTAAACTTATTATCAAA
          1 TTTAAAATTATTATCAAA

                           *  
       1062 TTTAAAATTATTAT-GAA
          1 TTTAAAATTATTATCAAA

                    
       1079 TTTAAAAT
          1 TTTAAAAT

       1087 AAATAAAGTT


Statistics
Matches: 23,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  17   10  0.43
  18   13  0.57

ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47


Consensus pattern (18 bp):   
TTTAAAATTATTATCAAA
Done.