Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011788.1 Kokia drynarioides strain JFW-HI SEQ_126783, 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: 13758
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37


Found at i:5095 original size:40 final size:40

Alignment explanation


    Indices: 5047--5127  Score: 162
    Period size: 40  Copynumber: 2.0  Consensus size: 40

       5037 GCTTCCATGA

                                                    
       5047 TTCAAATTCCATAAAAATAAAAATAAATAGCTTTGGGACT
          1 TTCAAATTCCATAAAAATAAAAATAAATAGCTTTGGGACT

                                                    
       5087 TTCAAATTCCATAAAAATAAAAATAAATAGCTTTGGGACT
          1 TTCAAATTCCATAAAAATAAAAATAAATAGCTTTGGGACT

             
       5127 T
          1 T

       5128 ACTTGAAATA


Statistics
Matches: 41,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  40   41  1.00

ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31


Consensus pattern (40 bp):   
TTCAAATTCCATAAAAATAAAAATAAATAGCTTTGGGACT

Found at i:12164 original size:14 final size:14

Alignment explanation


    Indices: 12130--12164  Score: 52
    Period size: 14  Copynumber: 2.5  Consensus size: 14

      12120 GCCGCCCATA

                        * 
      12130 TTATTTTTAAATTT
          1 TTATTTTTAAATAT

              *           
      12144 TTTTTTTTAAATAT
          1 TTATTTTTAAATAT

                   
      12158 TTATTTT
          1 TTATTTT

      12165 ATTTTATTTT


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  14   18  1.00

ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74


Consensus pattern (14 bp):   
TTATTTTTAAATAT

Found at i:12723 original size:45 final size:45

Alignment explanation


    Indices: 12659--12751  Score: 186
    Period size: 45  Copynumber: 2.1  Consensus size: 45

      12649 CATGCTAAAT

                                                         
      12659 CTCGGGGTTTCTGATCATATGATCCCTGGACAACCAACTTTATCC
          1 CTCGGGGTTTCTGATCATATGATCCCTGGACAACCAACTTTATCC

                                                         
      12704 CTCGGGGTTTCTGATCATATGATCCCTGGACAACCAACTTTATCC
          1 CTCGGGGTTTCTGATCATATGATCCCTGGACAACCAACTTTATCC

               
      12749 CTC
          1 CTC

      12752 AAGAATAAAA


Statistics
Matches: 48,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  45   48  1.00

ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31


Consensus pattern (45 bp):   
CTCGGGGTTTCTGATCATATGATCCCTGGACAACCAACTTTATCC
Done.