Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007354.1 Corchorus capsularis cultivar CVL-1 contig07375, 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: 2043
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35


Found at i:867 original size:302 final size:304

Alignment explanation


    Indices: 315--921  Score: 905
    Period size: 302  Copynumber: 2.0  Consensus size: 304

        305 TGCTTCTCAA

                                      *                           *          
        315 GCAGAAGAAGATGGTGAAATGTCGATGACTGAGACACATGTGTTCCACGTTTTTGTACTCTTCTT
          1 GCAGAAGAAGATGGTGAAATGTCGATCACTGAGACACATGTGTTCCACGTTTTTATACTCTTCTT

            *                      *        *   *                 *          
        380 TGCAATTGCTAACTCACTCAAATTTTTATATATAGGGTCTTCAAGAGTCTTCTTTACAAATGCAT
         66 CGCAATTGCTAACTCACTCAAATCTTTATATAAAGGATCTTCAAGAGTCTTCTTAACAAATGCAT

                                   **                                 *   * *
        445 CGTGACAAACTTTACCCCAATACCTTGAGTTCACCGCAACACTTCTTAGTGACAGCTCCGGTTTT
        131 CGTGACAAACTTTACCCCAATACAATGAGTTCACCGCAACACTTCTTAGTGACAGCTCAGGTATA

            *                                   **          *        *       
        510 GAATATACTTGTGAAAACTTCCCTGACACAGGGCAGTTCCATTTTTGTTTTGCAATTGTTTTCCT
        196 AAATATACTTGTGAAAACTTCCCTGACACAGGGCAGGCCCATTTTTGTCTTGCAATTATTTTCCT

                                       *     **         
        575 TAATAATCAAGTCGGGGTTTTCTGCAGGTGAAATGACTCCGCTT
        261 TAATAATCAAGTCGGGGTTTTCTGCAGCTGAAACAACTCCGCTT

                    *                        *             *                 
        619 GCAGAAGAGGATGGTGAAATGTCGATCACTGAGCCACATGTGTTCCATGTTTTTATACTC-TCTT
          1 GCAGAAGAAGATGGTGAAATGTCGATCACTGAGACACATGTGTTCCACGTTTTTATACTCTTCTT

                    * *    *  *  *                                           
        683 CGCAATTGTTGACTCGCTTAAGTCTTTATATAAAGGATCTTCAAGAGTCTTCTTAACAAATGCAT
         66 CGCAATTGCTAACTCACTCAAATCTTTATATAAAGGATCTTCAAGAGTCTTCTTAACAAATGCAT

                                  *                     *                    
        748 CGTGACAAACTTTA-CCCAATATAATGAGTTCACCGCAACACTTTTTAGTGACAGCTCAGGTATA
        131 CGTGACAAACTTTACCCCAATACAATGAGTTCACCGCAACACTTCTTAGTGACAGCTCAGGTATA

                                                                             
        812 AAATATACTTGTGAAAACTTCCCTGGA-ACAGGGCAGGCCCATTTTTGTCTTGCAATTATTTTCC
        196 AAATATACTTGTGAAAACTTCCCT-GACACAGGGCAGGCCCATTTTTGTCTTGCAATTATTTTCC

                          *                              
        876 TTAATAATCAAGTCTGGGTTTTCTGCAGCTGAAACAACTCCGCTT
        260 TTAATAATCAAGTCGGGGTTTTCTGCAGCTGAAACAACTCCGCTT

             
        921 G
          1 G

        922 TTAAAACAAG


Statistics
Matches: 271,  Mismatches: 31, Indels: 4
        0.89            0.10        0.01

Matches are distributed among these distances:
 302  141  0.52
 303   75  0.28
 304   55  0.20

ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34


Consensus pattern (304 bp):   
GCAGAAGAAGATGGTGAAATGTCGATCACTGAGACACATGTGTTCCACGTTTTTATACTCTTCTT
CGCAATTGCTAACTCACTCAAATCTTTATATAAAGGATCTTCAAGAGTCTTCTTAACAAATGCAT
CGTGACAAACTTTACCCCAATACAATGAGTTCACCGCAACACTTCTTAGTGACAGCTCAGGTATA
AAATATACTTGTGAAAACTTCCCTGACACAGGGCAGGCCCATTTTTGTCTTGCAATTATTTTCCT
TAATAATCAAGTCGGGGTTTTCTGCAGCTGAAACAACTCCGCTT
Done.