Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006459.1 Corchorus capsularis cultivar CVL-1 contig06480, 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: 2209
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26


Found at i:678 original size:33 final size:33

Alignment explanation


    Indices: 636--700  Score: 112
    Period size: 33  Copynumber: 2.0  Consensus size: 33

        626 CCAGCCATGC

                *                            
        636 GACTTGGAGAAGCCCGGCCAACACCGGCCACGT
          1 GACTCGGAGAAGCCCGGCCAACACCGGCCACGT

                      *                     
        669 GACTCGGAGATGCCCGGCCAACACCGGCCACG
          1 GACTCGGAGAAGCCCGGCCAACACCGGCCACG

        701 CGACATGGAC


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  33   30  1.00

ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08


Consensus pattern (33 bp):   
GACTCGGAGAAGCCCGGCCAACACCGGCCACGT

Found at i:719 original size:33 final size:33

Alignment explanation


    Indices: 629--731  Score: 111
    Period size: 33  Copynumber: 3.1  Consensus size: 33

        619 CTAGTGACCA

                *      *   * *               
        629 GCCATGCGACTTGGAGAAGCCCGGCCAACACCG
          1 GCCACGCGACTCGGACATGCCCGGCCAACACCG

                  *        *                 
        662 GCCACGTGACTCGGAGATGCCCGGCCAACACCG
          1 GCCACGCGACTCGGACATGCCCGGCCAACACCG

                                *              
        695 GCCACGCGACAT-GGACATGTCCGGCC-ACAACCG
          1 GCCACGCGAC-TCGGACATGCCCGGCCAAC-ACCG

                
        728 GCCA
          1 GCCA

        732 TCGCTTAGCG


Statistics
Matches: 61,  Mismatches: 7, Indels: 4
        0.85            0.10        0.06

Matches are distributed among these distances:
  32    2  0.03
  33   58  0.95
  34    1  0.02

ACGTcount: A:0.23, C:0.39, G:0.29, T:0.09


Consensus pattern (33 bp):   
GCCACGCGACTCGGACATGCCCGGCCAACACCG

Found at i:1681 original size:154 final size:154

Alignment explanation


    Indices: 1317--2204  Score: 1431
    Period size: 154  Copynumber: 5.8  Consensus size: 154

       1307 TCGATTTCTT

                                 *   *   *                             *     
       1317 AAAATAATTATAGTTAGGCCAGAAATAATGGAAAGAAAAGCTTTGTGGTTTGCCAAATCAAAGAC
          1 AAAATAATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC

                *                          *                              ** 
       1382 GATTTAAAACAGCACTAATGGGCCCCGAAAGACCCGAAATAACAAGTGTTCTGAATGAGCT-TTA
         66 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                *                   
       1446 ACTTGACAATGGACTAATCTCATC
        131 ACTTCACAATGGACTAATCTCATC

                              * *                                            
       1470 AAAATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC
          1 AAAATAATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC

                                                                             
       1535 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
         66 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                                 *  
       1600 ACTTCACAATGGACTAATCTCTTC
        131 ACTTCACAATGGACTAATCTCATC

                  *                           *          *    *              
       1624 AAAATAGTTATAGTTAGGCCATAAACAATTGAAACAAAAGCTTTGCGGTTCGCCAAATCGAAGAC
          1 AAAATAATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC

                                *                                            
       1689 GATTCAAAACAGCACTAATGAGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
         66 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                                    
       1754 ACTTCACAATGGACTAATCTCATC
        131 ACTTCACAATGGACTAATCTCATC

                                 *       *                       *      *    
       1778 AAAATAATTATAGTTAGGCCAGAAACAATGGAAAGAAAAGCTTTGTGGTTTGCTAAATCGCAGAC
          1 AAAATAATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC

                                                                             
       1843 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
         66 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                              *     
       1908 ACTTCACAATGGACTAATTTCATC
        131 ACTTCACAATGGACTAATCTCATC

                           *                  *                              
       1932 AAAATAATTATAGTTGGGCCATAAACAATTGAAACAAAAGCTTTGTGGTTTGCCAAATCGAAGAC
          1 AAAATAATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC

                                                                             
       1997 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
         66 GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA

                     *            * 
       2062 ACTTCACAAAGGACTAATCTCACC
        131 ACTTCACAATGGACTAATCTCATC

                 *       *    * *                                      *    *
       2086 AAAATGATTATAGCTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTTGG-TTG-CAAATTGAAGC
          1 AAAATAATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCTTTG-TGGTTTGCCAAATCGAAGA

                 *                 * *                              
       2149 CGATTTAAAACAGCACTAATGGGACTCGAAAGGCCCGAAATAACAAGTGTTCTGAA
         65 CGATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAA

       2205 CGAGA


Statistics
Matches: 683,  Mismatches: 50, Indels: 4
        0.93            0.07        0.01

Matches are distributed among these distances:
 153  180  0.26
 154  500  0.73
 155    3  0.00

ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23


Consensus pattern (154 bp):   
AAAATAATTATAGTTAGGCCATAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC
GATTCAAAACAGCACTAATGGGCCCCGAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAA
ACTTCACAATGGACTAATCTCATC

Done.