Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003763.1 Corchorus capsularis cultivar CVL-1 contig03771, 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: 2942
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29


Found at i:1938 original size:156 final size:155

Alignment explanation


    Indices: 1722--2271  Score: 600
    Period size: 155  Copynumber: 3.5  Consensus size: 155

       1712 TGGCTTGTTT

                 *                                                *       *  
       1722 CGAGCCCTCCTTCATGGTGAACTAGGTTTCACACCCCAAACTGTCCTTAAATGAGAAACTAGTAT
          1 CGAGCTCTCCTTCATGGTGAACTAGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCAT

                                                                       *     
       1787 AAGTTTTTCATTCTAAGTCTGAATGAGCTGAAATTTTTCCAAGGGACTTAGGA-TATCTACATAA
         66 AAGTTTTTCATTCTAAGTCTGAATGAGCTGAAA-TTTTCCAAGGGACTTA-GATTATCTCCATAA

                 *                     
       1851 GACTAGGGAAAAAATTATAAGTAAAAC
        129 GACTATGGAAAAAATTATAAGTAAAAC

                        *    *                    * **                       
       1878 CGAGCTCTCCTTGATGGAGAACTAGGTTTC-CACCCCTGAGTTGTCCTTAAATGAAAAACTAGCA
          1 CGAGCTCTCCTTCATGGTGAACTAGGTTTCACACCCC-AAACTGTCCTTAAATGAAAAACTAGCA

                                 *                               *      *    
       1942 TAAGTTTTTCATTCTAAGTCTAAATGAGCTG--ATTTTCCACCAGTAGG-CTTCGATTATTTCCA
         65 TAAGTTTTTCATTCTAAGTCTGAATGAGCTGAAATTTTCCA--AG--GGACTTAGATTATCTCCA

                                          
       2004 TAAGACTATGGAAAAAATTATAAGTAAAAC
        126 TAAGACTATGGAAAAAATTATAAGTAAAAC

                         ** *      *  **  *     *    *         *             
       2034 CGAGCT-TCCCTTGGTAGTGAACCA-ACTTAACACCTCAAAATGTCCTTAACTGAAAAACTAGCA
          1 CGAGCTCT-CCTTCATGGTGAACTAGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCA

                                  **    *        **     *             *   *  
       2097 TAAGTTTTTCATTCTAAGTCTGTTTGAGGTGAAACTTAGCCAAGAGACTTAGATTATCCCCACAA
         65 TAAGTTTTTCATTCTAAGTCTGAATGAGCTGAAA-TTTTCCAAGGGACTTAGATTATCTCCATAA

                             *          
       2162 -ACTTATGGAAAAAATTCTAAGTAAAAC
        129 GAC-TATGGAAAAAATTATAAGTAAAAC

               *                  *        *                                 
       2189 CGAACTC-CCTATCATGGTGAAGT-GGTTTCTCACCCCAAACTGTCCTTAAATGAAAAACTAGCA
          1 CGAGCTCTCCT-TCATGGTGAACTAGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCA

                                 
       2252 TAAGTTTTTCA-TCTTAAGTC
         65 TAAGTTTTTCATTC-TAAGTC

       2272 CATTTGAGAT


Statistics
Matches: 327,  Mismatches: 50, Indels: 35
        0.79            0.12        0.08

Matches are distributed among these distances:
 153    7  0.02
 154    9  0.03
 155  161  0.49
 156  142  0.43
 157    3  0.01
 158    5  0.02

ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30


Consensus pattern (155 bp):   
CGAGCTCTCCTTCATGGTGAACTAGGTTTCACACCCCAAACTGTCCTTAAATGAAAAACTAGCAT
AAGTTTTTCATTCTAAGTCTGAATGAGCTGAAATTTTCCAAGGGACTTAGATTATCTCCATAAGA
CTATGGAAAAAATTATAAGTAAAAC

Done.