Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000515.1 Corchorus olitorius cultivar O-4 contig00515, 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, 903

Length: 1506
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38


Found at i:517 original size:15 final size:15

Alignment explanation


    Indices: 487--528  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        477 TTATTTTGCT

                     *      
        487 TTGTTTTCAAGTTTAA
          1 TTGTTTTC-TGTTTAA

                           
        503 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

                       
        518 TTGTTTTCTGT
          1 TTGTTTTCTGT

        529 CAACCTCTGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   17  0.68
  16    8  0.32

ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:1011 original size:25 final size:27

Alignment explanation


    Indices: 983--1041  Score: 70
    Period size: 24  Copynumber: 2.3  Consensus size: 27

        973 TTTGCATCGA

                                       
        983 AAAAAAAAAATTAT-TTTT-GCGTCAT
          1 AAAAAAAAAATTATGTTTTGGCGTCAT

                  *     *              
       1008 -AAAAATAAATTTTGTTTTGGCGTCAT
          1 AAAAAAAAAATTATGTTTTGGCGTCAT

               *    
       1034 AAAGAAAA
          1 AAAAAAAA

       1042 GGGTTTTTGC


Statistics
Matches: 27,  Mismatches: 4, Indels: 4
        0.77            0.11        0.11

Matches are distributed among these distances:
  24   11  0.41
  25    4  0.15
  26    7  0.26
  27    5  0.19

ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34


Consensus pattern (27 bp):   
AAAAAAAAAATTATGTTTTGGCGTCAT

Found at i:1011 original size:26 final size:26

Alignment explanation


    Indices: 982--1041  Score: 66
    Period size: 26  Copynumber: 2.3  Consensus size: 26

        972 TTTTGCATCG

                              *       
        982 AAAAAAAAAAATTATTTTTGCGTCAT
          1 AAAAAAAAAAATTATTTTGGCGTCAT

                 *   **  *            
       1008 AAAAATAAATTTTGTTTTGGCGTCAT
          1 AAAAAAAAAAATTATTTTGGCGTCAT

               *    
       1034 AAAGAAAA
          1 AAAAAAAA

       1042 GGGTTTTTGC


Statistics
Matches: 27,  Mismatches: 7, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  26   27  1.00

ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33


Consensus pattern (26 bp):   
AAAAAAAAAAATTATTTTGGCGTCAT
Done.