Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014036.1 Kokia drynarioides strain JFW-HI SEQ_129067, 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: 26107
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34


Found at i:6277 original size:20 final size:21

Alignment explanation


    Indices: 6254--6295  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       6244 AAAAAAAATC

                                 
       6254 AAATTCA-AATGAAAATATTG
          1 AAATTCAGAATGAAAATATTG

                    *      *     
       6274 AAATTCAGGATGAAATTATTG
          1 AAATTCAGAATGAAAATATTG

             
       6295 A
          1 A

       6296 TATGACATTA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  20    7  0.37
  21   12  0.63

ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31


Consensus pattern (21 bp):   
AAATTCAGAATGAAAATATTG

Found at i:9802 original size:110 final size:109

Alignment explanation


    Indices: 9609--9828  Score: 413
    Period size: 110  Copynumber: 2.0  Consensus size: 109

       9599 ATATCCATTA

                                                            *                
       9609 ACATGGATCTGCAAGTAGTATTTCCATGCACAAGAGCTTGACTTGCCTGTATGATGGAAGACAAC
          1 ACATGGATCTGCAAGTAGTATTTCCATGCACAAGAGCTTGACTTGCCTATATGATGGAAGACAAC

               *                                         
       9674 ACATACCAAGGGGGGAATACAGTAAAAGTGATTTTCAGCATTTAC
         66 ACACACCAAGGGGGGAATACAGT-AAAGTGATTTTCAGCATTTAC

                                                                             
       9719 ACATGGATCTGCAAGTAGTATTTCCATGCACAAGAGCTTGACTTGCCTATATGATGGAAGACAAC
          1 ACATGGATCTGCAAGTAGTATTTCCATGCACAAGAGCTTGACTTGCCTATATGATGGAAGACAAC

                                                        
       9784 ACACACCAAGGGGGGAATACAGTAAAGTGATTTTCAGCATTTAC
         66 ACACACCAAGGGGGGAATACAGTAAAGTGATTTTCAGCATTTAC

             
       9828 A
          1 A

       9829 TAAGTATCCA


Statistics
Matches: 108,  Mismatches: 2, Indels: 1
        0.97            0.02        0.01

Matches are distributed among these distances:
 109   22  0.20
 110   86  0.80

ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25


Consensus pattern (109 bp):   
ACATGGATCTGCAAGTAGTATTTCCATGCACAAGAGCTTGACTTGCCTATATGATGGAAGACAAC
ACACACCAAGGGGGGAATACAGTAAAGTGATTTTCAGCATTTAC

Found at i:24962 original size:13 final size:13

Alignment explanation


    Indices: 24944--24975  Score: 64
    Period size: 13  Copynumber: 2.5  Consensus size: 13

      24934 TCTTTTTCTT

                         
      24944 TTTTATTATTTAA
          1 TTTTATTATTTAA

                         
      24957 TTTTATTATTTAA
          1 TTTTATTATTTAA

                  
      24970 TTTTAT
          1 TTTTAT

      24976 AATAAAATAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   19  1.00

ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72


Consensus pattern (13 bp):   
TTTTATTATTTAA
Done.