Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006595.1 Corchorus capsularis cultivar CVL-1 contig06616, 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, 634

Length: 1058
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25


Found at i:301 original size:154 final size:153

Alignment explanation


    Indices: 13--1058  Score: 1502
    Period size: 154  Copynumber: 6.8  Consensus size: 153

          3 ATTCGGCCTT

                *                                                            
         13 GAAAAGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCACAGAGGACTAATCTCA-CAA
          1 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCACA-AGGACTAATCTCATC-A

                *                                               *            
         77 AAATGATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCTAAATCGAAGACG
         64 AAATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGACG

                                     
        142 ATTCAAAACAGCACTAATGGGCCCC
        129 ATTCAAAACAGCACTAATGGGCCCC

                   *        *    *           *  *            *               
        167 GAAAGGCTCGAAATAATAAGTTTTCTGAATGAGATAGAAACTTCATCAAAGACTAATCTCATCAA
          1 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCA-CAAGGACTAATCTCATCAA

                            * *     *  *   *                                 
        232 AATAATTATAGTTAGGCCATAAACTATGGAAGGAAAAGCTTTGTGGTTTGCCAAATCGAAGACGA
         65 AATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGACGA

                        *         * 
        297 TTCAAAACAGCAGTAATGGGCCTC
        130 TTCAAAACAGCACTAATGGGCCCC

                                                       *                     
        321 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTTACAATGGACTAATCTCATCAA
          1 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCACAA-GGACTAATCTCATCAA

                 *                                                  **   *   
        386 AATAACTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATTTAAGCCGA
         65 AATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGACGA

                     *     * *    **
        451 TTCAAAACAACACTATTCGGCCTT
        130 TTCAAAACAGCACTAATGGGCCCC

                                                                         *   
        475 GAAA-GCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCACAGAGGACTAATCTCACCAA
          1 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCACA-AGGACTAATCTCATCAA

               *                                *                   *        
        539 AATGATTATAGTTAGGTCGTAAACAATTGAAAGAAAGGCTTTGTGGTTTGCCAAATTGAAGACGA
         65 AATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGACGA

                       *           *
        604 TTCAAAACAGCGCTAATGGGCCCT
        130 TTCAAAACAGCACTAATGGGCCCC

                                           *  *  *            *              
        628 GAAAGGCCCGAAATAACAAGTGTTCTAGAATAAGATAGAAACTTCACAAAAGACTAATCTCATCA
          1 GAAAGGCCCGAAATAACAAGTGTTCT-GAATGAGCTAAAAACTTCAC-AAGGACTAATCTCATCA

                             * *     *  *                       *            
        693 AAATAATTATAGTTAGGCCATAAACTATGGAAAGAAAACGCTTTGTGGTTTGGCAAATCGAAGAC
         64 AAATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAA-GCTTTGTGGTTTGCCAAATCGAAGAC

               *                       
        758 GATCCAAAACAGTCACTAATGGGCCCC
        128 GATTCAAAACAG-CACTAATGGGCCCC

                                                        *                    
        785 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTTAACAATGGACTAATCTCATAC
          1 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAAC-TTCACAA-GGACTAATCTCAT-C

                   *                                             *           
        850 AAAATAACTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCTAAATCGAAGAC
         63 AAAATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGAC

                          *           
        915 GATTCAAAACAGCAGTAATGGGCCCC
        128 GATTCAAAACAGCACTAATGGGCCCC

            *                              *             *     *             
        941 AAAAGGCCCGAAATAACAAGTGTTCTGAATGTGCTAAAAACTTCAAAATGGTCTAATCTCATCAA
          1 GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCACAA-GGACTAATCTCATCAA

                     *                                           
       1006 AATAATTATGGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCA
         65 AATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCA


Statistics
Matches: 793,  Mismatches: 87, Indels: 24
        0.88            0.10        0.03

Matches are distributed among these distances:
 153  142  0.18
 154  341  0.43
 155   84  0.11
 156  102  0.13
 157   89  0.11
 158   35  0.04

ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24


Consensus pattern (153 bp):   
GAAAGGCCCGAAATAACAAGTGTTCTGAATGAGCTAAAAACTTCACAAGGACTAATCTCATCAAA
ATAATTATAGTTAGGTCGTAAACAATTGAAAGAAAAGCTTTGTGGTTTGCCAAATCGAAGACGAT
TCAAAACAGCACTAATGGGCCCC
Done.