Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009516.1 Corchorus olitorius cultivar O-4 contig09548, 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, 641

Length: 1069
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41


Found at i:540 original size:31 final size:31

Alignment explanation


    Indices: 481--542  Score: 97
    Period size: 31  Copynumber: 2.0  Consensus size: 31

        471 GAGTTTTGTA

                              **   *       
        481 AAACTTTTGAATCGCCTATTATATCCTTATT
          1 AAACTTTTGAATCGCCTAACATACCCTTATT

                                           
        512 AAACTTTTGAATCGCCTAACATACCCTTATT
          1 AAACTTTTGAATCGCCTAACATACCCTTATT

        543 TTTTCGAATA


Statistics
Matches: 28,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  31   28  1.00

ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40


Consensus pattern (31 bp):   
AAACTTTTGAATCGCCTAACATACCCTTATT

Found at i:683 original size:93 final size:94

Alignment explanation


    Indices: 580--749  Score: 288
    Period size: 93  Copynumber: 1.8  Consensus size: 94

        570 TGTTTAAAAT

                         ***                                                 
        580 TTTTATAGTTTTAGTTAACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCCTTATAACTA
          1 TTTTATAGTTTTACACAACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCCTTATAACTA

                                         
        645 TTTT-ATTTTTACCATTTTACTATTTTAC
         66 TTTTAATTTTTACCATTTTACTATTTTAC

                                              *                          *   
        673 TTTTATAGTTTTACACAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATACCTA
          1 TTTTATAGTTTTACACAACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCCTTATAACTA

                        
        738 TTTTAATTTTTA
         66 TTTTAATTTTTA

        750 TGATATTACT


Statistics
Matches: 71,  Mismatches: 5, Indels: 1
        0.92            0.06        0.01

Matches are distributed among these distances:
  93   64  0.90
  94    7  0.10

ACGTcount: A:0.34, C:0.13, G:0.02, T:0.52


Consensus pattern (94 bp):   
TTTTATAGTTTTACACAACTAAAAACTCTATTTTCATTTAATTAAATCTAATATCCTTATAACTA
TTTTAATTTTTACCATTTTACTATTTTAC
Done.