Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010302.1 Kokia drynarioides strain JFW-HI SEQ_125159, 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: 3648
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.30

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:946 original size:29 final size:30

Alignment explanation


    Indices: 885--956  Score: 119
    Period size: 29  Copynumber: 2.4  Consensus size: 30

        875 ATATAGCATT

                                          
        885 GACAAAGACACACAACAAGCATGTAGCACG
          1 GACAAAGACACACAACAAGCATGTAGCACG

                        *                 
        915 GACAAAGACACATAACAA-CATGTAGCACG
          1 GACAAAGACACACAACAAGCATGTAGCACG

                *        
        944 GACAGAGACACAC
          1 GACAAAGACACAC

        957 CGCAAGTGGG


Statistics
Matches: 39,  Mismatches: 3, Indels: 1
        0.91            0.07        0.02

Matches are distributed among these distances:
  29   22  0.56
  30   17  0.44

ACGTcount: A:0.47, C:0.26, G:0.19, T:0.07


Consensus pattern (30 bp):   
GACAAAGACACACAACAAGCATGTAGCACG

Found at i:1602 original size:29 final size:31

Alignment explanation


    Indices: 1559--1616  Score: 84
    Period size: 30  Copynumber: 1.9  Consensus size: 31

       1549 TAAAAGTTGG

                                           
       1559 TAAAAAAAATAAATTTA-GACCCTTAAAAAC
          1 TAAAAAAAATAAATTTAGGACCCTTAAAAAC

                 *             *         
       1589 TAAAAGAAA-AAATTTAGGGCCCTTAAAA
          1 TAAAAAAAATAAATTTAGGACCCTTAAAA

       1617 GTTGATAAAA


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

Matches are distributed among these distances:
  29    7  0.28
  30   18  0.72

ACGTcount: A:0.57, C:0.12, G:0.09, T:0.22


Consensus pattern (31 bp):   
TAAAAAAAATAAATTTAGGACCCTTAAAAAC

Found at i:2738 original size:24 final size:23

Alignment explanation


    Indices: 2711--2761  Score: 68
    Period size: 24  Copynumber: 2.2  Consensus size: 23

       2701 TTTTTTAAAC

                 *                   
       2711 AAAAATTATTCTAA-TTTATTTTTT
          1 AAAAAATATTC-AATTTTA-TTTTT

                                   
       2735 AAAAAATATTCAATTTTATTTTT
          1 AAAAAATATTCAATTTTATTTTT

                
       2758 AAAA
          1 AAAA

       2762 TGATTAGTTT


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  23   11  0.44
  24   14  0.56

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


Consensus pattern (23 bp):   
AAAAAATATTCAATTTTATTTTT
Done.