Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014165.1 Kokia drynarioides strain JFW-HI SEQ_129198, 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: 3715
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30


Found at i:411 original size:45 final size:45

Alignment explanation


    Indices: 307--503  Score: 333
    Period size: 45  Copynumber: 4.4  Consensus size: 45

        297 GTATTGCTCA

                                            *   *        
        307 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCATCGC-ATAC
          1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCACCGCAATAC

                                                         
        351 TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCACCGCAATAC
          1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCACCGCAATAC

                                                *        
        396 TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCATCGCAATAC
          1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCACCGCAATAC

                                   *     *  *            
        441 TCAAGCCAAGGATATCAGCCTCAATTTGATGAGCCACCGCAATAC
          1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCACCGCAATAC

                              
        486 TCAAGCCAAGGATATCAG
          1 TCAAGCCAAGGATATCAG

        504 GTTGAGTTGA


Statistics
Matches: 145,  Mismatches: 7, Indels: 1
        0.95            0.05        0.01

Matches are distributed among these distances:
  44   38  0.26
  45  107  0.74

ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19


Consensus pattern (45 bp):   
TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCACCGCAATAC

Found at i:514 original size:89 final size:89

Alignment explanation


    Indices: 307--531  Score: 362
    Period size: 90  Copynumber: 2.5  Consensus size: 89

        297 GTATTGCTCA

                                                                             
        307 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCATCGCATACTCAAGCCAAGGATATCAGCCT
          1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCATCGCATACTCAAGCCAAGGATATCAGCCT

              *                     
        372 CAGTTTGACGACCCACCGCAATAC
         66 CAATTTGACGACCCACCGCAATAC

                                            *                                
        396 TCAAGCCAAGGATATCAGCCTCAGTTTGACGACCCATCGCAATACTCAAGCCAAGGATATCAGCC
          1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCATCGC-ATACTCAAGCCAAGGATATCAGCC

                     *  *            
        461 TCAATTTGATGAGCCACCGCAATAC
         65 TCAATTTGACGACCCACCGCAATAC

                              ** *                         
        486 TCAAGCCAAGGATATCAGGTTGAG-TTGACGAGCCATCGCGATACTC
          1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCATCGC-ATACTC

        532 TATTCCTCCC


Statistics
Matches: 126,  Mismatches: 9, Indels: 2
        0.92            0.07        0.01

Matches are distributed among these distances:
  89   59  0.47
  90   67  0.53

ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20


Consensus pattern (89 bp):   
TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCATCGCATACTCAAGCCAAGGATATCAGCCT
CAATTTGACGACCCACCGCAATAC
Done.