Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014017.1 Corchorus capsularis cultivar CVL-1 contig14038, 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: 2194
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33


Found at i:491 original size:215 final size:213

Alignment explanation


    Indices: 9--573  Score: 678
    Period size: 215  Copynumber: 2.6  Consensus size: 213

          1 ATATATAT

                                 *                           *               
          9 ATATATTAAAATGACATTTCTGAAAAACGTTGTTATAAATGTCGGAAAATTCTATCTTAAAGCGA
          1 ATATATTAAAATGACATTTCTCAAAAACGTTGTTATAAATGTCGGAAAAGTCTATCTTAAAGCGA

             *                     * *     *         *                       
         74 CGTTTGTTAAAAAAATGTCGCATTACTGAATAACGTTTGAAAAAAAAAAGTCTCTACAAACGTCA
         66 CATTTGTTAAAAAAATGTCGCATGATTGAATGACG-TTG--GAAAAAAAGTCTCTACAAACGTC-

                                 *  *                                 *      
        139 GAAAAGCATAACTAAAGCGACGTTGTAAAAAAACGTCATGCAATTTAAAAAGGAGTCGTAAGGCA
        127 GAAAAGCATAACTAAAGCGACATTATAAAAAAACGTCATGCAATTTAAAAAGGAGTCGCAAGGCA

                                  
        204 CTACGACGTTCATTAAAATGTC
        192 CTACGACGTTCATTAAAATGTC

                                                                             
        226 ATATATTAAAATGACATTTC-CGAAAAACGTTGTTATAAATGTCGGAAAAGTCTATCTTAAAGCG
          1 ATATATTAAAATGACATTTCTC-AAAAACGTTGTTATAAATGTCGGAAAAGTCTATCTTAAAGCG

                                        *  * *       *    *                  
        290 ACATTTGTTAAAAAAATGTCGCATGATTTAACGCCGTTGGAGAAAACGTCTCTACAAACGTCGCA
         65 ACATTTGTTAAAAAAATGTCGCATGATTGAATGACGTTGGAAAAAAAGTCTCTACAAACGTCG-A

                                      *            *        *                
        355 AAAGCATAAAC-AAGAGCGACATTATTAAAAAACGTCATTCAATTTTAGAAA-GAGTCGCAA-G-
        129 AAAGCAT-AACTAA-AGCGACATTATAAAAAAACGTCATGCAA-TTTAAAAAGGAGTCGCAAGGC

              *          *            
        416 ATTTAGCGACGTTTATTAAAAATGTC
        191 A-CTA-CGACGTTCATT-AAAATGTC

              *    *       *      *                                *         
        442 ATTTA-TCAAATGACGTTTCTCTAAAACGTTGTTATAAATGTCGGAAAAGTCTATTTTAAAGCGA
          1 ATATATTAAAATGACATTTCTCAAAAACGTTGTTATAAATGTCGGAAAAGTCTATCTTAAAGCGA

                              *             *    *        *           *      
        506 CATTTGTT--AAAAATGTTGCATGATTGAATGGCGTTAGATAAAAATGTCTCTACAAATGTCGTA
         66 CATTTGTTAAAAAAATGTCGCATGATTGAATGACGTTGGA-AAAAAAGTCTCTACAAACGTCG-A

                 
        569 AAAGC
        129 AAAGC

        574 GTGAGCAATA


Statistics
Matches: 304,  Mismatches: 34, Indels: 23
        0.84            0.09        0.06

Matches are distributed among these distances:
 213   27  0.09
 214   58  0.19
 215  106  0.35
 216   23  0.08
 217   90  0.30

ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29


Consensus pattern (213 bp):   
ATATATTAAAATGACATTTCTCAAAAACGTTGTTATAAATGTCGGAAAAGTCTATCTTAAAGCGA
CATTTGTTAAAAAAATGTCGCATGATTGAATGACGTTGGAAAAAAAGTCTCTACAAACGTCGAAA
AGCATAACTAAAGCGACATTATAAAAAAACGTCATGCAATTTAAAAAGGAGTCGCAAGGCACTAC
GACGTTCATTAAAATGTC
Done.