Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000151.1 Kokia drynarioides strain JFW-HI SEQ_110810, 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: 5391
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.34


Found at i:1867 original size:22 final size:19

Alignment explanation


    Indices: 1816--1867  Score: 61
    Period size: 18  Copynumber: 2.6  Consensus size: 19

       1806 TGATTTTATG

                               
       1816 TTTAATTATTT-ATTAAAT
          1 TTTAATTATTTAATTAAAT

                *                
       1834 TTTATTTATTTAATTTAACAT
          1 TTTAATTATTTAA-TTAA-AT

                         
       1855 TTTAATATATTTA
          1 TTTAAT-TATTTA

       1868 CTCATGGACA


Statistics
Matches: 28,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  18   10  0.36
  19    1  0.04
  20    4  0.14
  21    7  0.25
  22    6  0.21

ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62


Consensus pattern (19 bp):   
TTTAATTATTTAATTAAAT

Found at i:4090 original size:18 final size:18

Alignment explanation


    Indices: 4067--4110  Score: 61
    Period size: 18  Copynumber: 2.4  Consensus size: 18

       4057 TTTGAAGTTG

                        **    
       4067 CAAGCTTAAACATTACTA
          1 CAAGCTTAAACAAAACTA

                  *           
       4085 CAAGCTCAAACAAAACTA
          1 CAAGCTTAAACAAAACTA

                    
       4103 CAAGCTTA
          1 CAAGCTTA

       4111 TCAAAAGCTA


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  18   22  1.00

ACGTcount: A:0.48, C:0.25, G:0.07, T:0.20


Consensus pattern (18 bp):   
CAAGCTTAAACAAAACTA

Found at i:4121 original size:18 final size:18

Alignment explanation


    Indices: 4082--4146  Score: 69
    Period size: 18  Copynumber: 3.6  Consensus size: 18

       4072 TTAAACATTA

                        *      
       4082 CTACAAGCTCAAACAAAA-
          1 CTACAAGCTC-ATCAAAAG

                     *        
       4100 CTACAAGCTTATCAAAAG
          1 CTACAAGCTCATCAAAAG

                *             
       4118 CTACGAGCTCATCAAAAG
          1 CTACAAGCTCATCAAAAG

            * *        
       4136 ATGCAAGCTCA
          1 CTACAAGCTCA

       4147 ACCCAATATG


Statistics
Matches: 39,  Mismatches: 7, Indels: 2
        0.81            0.15        0.04

Matches are distributed among these distances:
  17    6  0.15
  18   33  0.85

ACGTcount: A:0.45, C:0.26, G:0.12, T:0.17


Consensus pattern (18 bp):   
CTACAAGCTCATCAAAAG
Done.