Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005759.1 Kokia drynarioides strain JFW-HI SEQ_120017, 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: 4139
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35


Found at i:278 original size:10 final size:8

Alignment explanation


    Indices: 247--279  Score: 59
    Period size: 8  Copynumber: 4.2  Consensus size: 8

        237 AATTTTAAAT

                    
        247 TTGA-ATA
          1 TTGATATA

                    
        254 TTGATATA
          1 TTGATATA

                    
        262 TTGATATA
          1 TTGATATA

                    
        270 TTGATATA
          1 TTGATATA

              
        278 TT
          1 TT

        280 TTTTAAAATA


Statistics
Matches: 25,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   7    4  0.16
   8   21  0.84

ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52


Consensus pattern (8 bp):   
TTGATATA

Found at i:2005 original size:113 final size:113

Alignment explanation


    Indices: 1802--2028  Score: 402
    Period size: 113  Copynumber: 2.0  Consensus size: 113

       1792 GCACTTTTGC

                               *                                       *     
       1802 ATTTGGGGATGTCTGAACTGACGTCAAATGTAGTAGTTATTTTGGGATATTTTCGCACCTAAGGA
          1 ATTTGGGGATGTCTGAACTAACGTCAAATGTAGTAGTTATTTTGGGATATTTTCGCACCCAAGGA

                                                            
       1867 TATTGTTTTCTAGGCATTTTATAATTAATTATTACATTTTCAGTAGTT
         66 TATTGTTTTCTAGGCATTTTATAATTAATTATTACATTTTCAGTAGTT

                *                                                            
       1915 ATTTTGGGATGTCT-AACCTAACGTCAAATGTAGTAGTTATTTTGGGATATTTTCGCACCCAAGG
          1 ATTTGGGGATGTCTGAA-CTAACGTCAAATGTAGTAGTTATTTTGGGATATTTTCGCACCCAAGG

                                                     *       
       1979 ATATTGTTTTCTAGGCATTTTATAATTAATTATTACATTTTTAGTAGTT
         65 ATATTGTTTTCTAGGCATTTTATAATTAATTATTACATTTTCAGTAGTT

             
       2028 A
          1 A

       2029 GTAGCTAAGT


Statistics
Matches: 109,  Mismatches: 4, Indels: 2
        0.95            0.03        0.02

Matches are distributed among these distances:
 112    2  0.02
 113  107  0.98

ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44


Consensus pattern (113 bp):   
ATTTGGGGATGTCTGAACTAACGTCAAATGTAGTAGTTATTTTGGGATATTTTCGCACCCAAGGA
TATTGTTTTCTAGGCATTTTATAATTAATTATTACATTTTCAGTAGTT
Done.