Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003288.1 Corchorus capsularis cultivar CVL-1 contig03296, 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: 1695
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40


Found at i:1010 original size:21 final size:21

Alignment explanation


    Indices: 984--1030  Score: 58
    Period size: 21  Copynumber: 2.2  Consensus size: 21

        974 TCTTCTAAAC

                  * *            
        984 TTTTTACTTACATTATAAAGT
          1 TTTTTAATAACATTATAAAGT

                       *    *    
       1005 TTTTTAATAACCTTATTAAGT
          1 TTTTTAATAACATTATAAAGT

                 
       1026 TTTTT
          1 TTTTT

       1031 TAGGAACCAT


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   22  1.00

ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57


Consensus pattern (21 bp):   
TTTTTAATAACATTATAAAGT

Found at i:1029 original size:22 final size:21

Alignment explanation


    Indices: 996--1056  Score: 68
    Period size: 22  Copynumber: 2.9  Consensus size: 21

        986 TTTACTTACA

                *                
        996 TTATAAAGTTTTTTAATAACC
          1 TTATTAAGTTTTTTAATAACC

                            **    
       1017 TTATTAAGTTTTTTTAGGAACC
          1 TTATTAAG-TTTTTTAATAACC

            *       *         
       1039 ATATTAAGGTTTTTAATA
          1 TTATTAAGTTTTTTAATA

       1057 TACAACCTTA


Statistics
Matches: 32,  Mismatches: 7, Indels: 2
        0.78            0.17        0.05

Matches are distributed among these distances:
  21   14  0.44
  22   18  0.56

ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49


Consensus pattern (21 bp):   
TTATTAAGTTTTTTAATAACC

Found at i:1607 original size:27 final size:27

Alignment explanation


    Indices: 1576--1629  Score: 81
    Period size: 27  Copynumber: 2.0  Consensus size: 27

       1566 ACATAAATTT

                                 *     
       1576 AGTAACCTCACATTCTTAGAATTTTTA
          1 AGTAACCTCACATTCTTAGAAATTTTA

                    **                 
       1603 AGTAACCTTGCATTCTTAGAAATTTTA
          1 AGTAACCTCACATTCTTAGAAATTTTA

       1630 GCATAGTAAT


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  27   24  1.00

ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41


Consensus pattern (27 bp):   
AGTAACCTCACATTCTTAGAAATTTTA
Done.