Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006594.1 Corchorus capsularis cultivar CVL-1 contig06615, 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, 628

Length: 1048
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27


Found at i:796 original size:426 final size:426

Alignment explanation


    Indices: 1--1048  Score: 1882
    Period size: 426  Copynumber: 2.5  Consensus size: 426

                                                                             
          1 CATCTAGGAAAGCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTCATCTCACTCCGACAAACCTC
          1 CATCTAGGAAAGCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTCATCTCACTCCGACAAACCTC

                                                                             
         66 TAAGAACGATGTGTTGCATACAAACTCGCAAAGTTGATGCTTTGGACTTCGAGGAGAGCTTTGTT
         66 TAAGAACGATGTGTTGCATACAAACTCGCAAAGTTGATGCTTTGGACTTCGAGGAGAGCTTTGTT

                                                                   *         
        131 TGTGCATAGCGCTGTTGAACAAGCTCATCTCATTCCGACACACGACTTTTGAGCAGTCGTTGCGC
        131 TGTGCATAGCGCTGTT-AACAAGCTCATCTCATTCCGACACACGACTTTTGAGCACTCGTTGCGC

                                                                             
        196 GAAAAAGCGCATCCAGAAAGAGTTTTGCTAAGAACTATGAATAGCACAAAAACGCGCAAAGTTGA
        195 GAAAAAGCGCATCCAGAAAGAGTTTTGCTAAGAACTATGAATAGCACAAAAACGCGCAAAGTTGA

                                                                             
        261 GGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAATCTCATCGCAATTCGA
        260 GGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAATCTCATCGCAATTCGA

                           *                     *                           
        326 CGCACGACATTTGAGTACTCGTTGCGCAAAAAAAGCATCTGGAATGAGCCTTTCGCTAAAAATGA
        325 CGCACGACATTTGAGCACTCGTTGCGCAAAAAAAGCACCTGGAATGAGCCTTTCGCTAAAAATGA

                                                 
        391 TGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGG
        390 TGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGG

                                            *                                
        428 CATCTAGGAAAGCTTTCTTTCTGCACAGGGCTATCCAAAAAGTTCATCTCACTCCGACAAACCTC
          1 CATCTAGGAAAGCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTCATCTCACTCCGACAAACCTC

                                *                               *  *         
        493 TAAGAACGATGTGTTGCATAGAAACTCGCAAAGTTGATGCTTTGGACTTCGACGAAAGCTTTG-T
         66 TAAGAACGATGTGTTGCATACAAACTCGCAAAGTTGATGCTTTGGACTTCGAGGAGAGCTTTGTT

                    *                *         *       *                     
        557 TGTGCATAACGCTGTCTAACAAGCTTATCTCATTCGGACACACAACTTTTGAGCACTCGTTGCGC
        131 TGTGCATAGCGCTGT-TAACAAGCTCATCTCATTCCGACACACGACTTTTGAGCACTCGTTGCGC

             *                                                *              
        622 GGAAAAGCGCATCCAGAAAGAGTTTTGCTAAGAACTATGAATAGCACAAATACGCGCAAAGTTGA
        195 GAAAAAGCGCATCCAGAAAGAGTTTTGCTAAGAACTATGAATAGCACAAAAACGCGCAAAGTTGA

                                                                             
        687 GGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAATCTCATCGCAATTCGA
        260 GGCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAATCTCATCGCAATTCGA

                            *                *                               
        752 CGCACGACATTTGAGCGCTCGTTGCGCAAAAAATGCACCTGGAATGAGCCTTTCGCTAAAAATGA
        325 CGCACGACATTTGAGCACTCGTTGCGCAAAAAAAGCACCTGGAATGAGCCTTTCGCTAAAAATGA

                                                 
        817 TGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGG
        390 TGTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGG

                            *                           *                    
        854 CATCTAGGAAAGCTTTGTTTCTGCACAGGGCTGTCCAAAAAGTTAATCTCACTCCGACAAACCTC
          1 CATCTAGGAAAGCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTCATCTCACTCCGACAAACCTC

                                                                             
        919 TAAGAACGATGTGTTGCATACAAACTCGCAAAGTTGATGCTTTGGACTTCGAGGAGAGCTTTGTT
         66 TAAGAACGATGTGTTGCATACAAACTCGCAAAGTTGATGCTTTGGACTTCGAGGAGAGCTTTGTT

                             *            *                      *           
        984 TGTGCATAGCGCTGTTTGACAAGCTCATCTTATTCCGACACACGACTTTTGAGTACTCGTTGCGC
        131 TGTGCATAGCGCTG-TTAACAAGCTCATCTCATTCCGACACACGACTTTTGAGCACTCGTTGCGC


Statistics
Matches: 590,  Mismatches: 28, Indels: 6
        0.95            0.04        0.01

Matches are distributed among these distances:
 426  407  0.69
 427  182  0.31
 428    1  0.00

ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27


Consensus pattern (426 bp):   
CATCTAGGAAAGCTTTCTTTCTGCACAGGGCTGTCCAAAAAGTTCATCTCACTCCGACAAACCTC
TAAGAACGATGTGTTGCATACAAACTCGCAAAGTTGATGCTTTGGACTTCGAGGAGAGCTTTGTT
TGTGCATAGCGCTGTTAACAAGCTCATCTCATTCCGACACACGACTTTTGAGCACTCGTTGCGCG
AAAAAGCGCATCCAGAAAGAGTTTTGCTAAGAACTATGAATAGCACAAAAACGCGCAAAGTTGAG
GCTTTGGACTTCGTGAAAGCTTTGTTTGTGCACAGGGCTGTCCAACAATCTCATCGCAATTCGAC
GCACGACATTTGAGCACTCGTTGCGCAAAAAAAGCACCTGGAATGAGCCTTTCGCTAAAAATGAT
GTTTTGCATACAACCGCTCAAAGTTGAGGTTTTGGG
Done.