Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014416.1 Corchorus olitorius cultivar O-4 contig14449, 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, 909

Length: 1516
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:108 original size:50 final size:50

Alignment explanation


    Indices: 46--251  Score: 376
    Period size: 50  Copynumber: 4.1  Consensus size: 50

         36 ATCTAACATN

                           *                *                 
         46 TTAAAAGGACCGTCTTCCGCTTATCCTTTGAATTGTCTACCAATTCAATC
          1 TTAAAAGGACCGTCTCCCGCTTATCCTTTGAACTGTCTACCAATTCAATC

                              *                 *             
         96 TTAAAAGGACCGTCTCCCACTTATCCTTTGAACTGTGTACCAATTCAATC
          1 TTAAAAGGACCGTCTCCCGCTTATCCTTTGAACTGTCTACCAATTCAATC

                                                              
        146 TTAAAAGGACCGTCTCCCGCTTATCCTTTGAACTGTCTACCAATTCAATC
          1 TTAAAAGGACCGTCTCCCGCTTATCCTTTGAACTGTCTACCAATTCAATC

                                                              
        196 TTAAAAGGACCGTCTCCCGCTTATCCTTTGAACTGTCTACCAATTCAATC
          1 TTAAAAGGACCGTCTCCCGCTTATCCTTTGAACTGTCTACCAATTCAATC

                  
        246 TTAAAA
          1 TTAAAA

        252 AGGTAATGCA


Statistics
Matches: 150,  Mismatches: 6, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  50  150  1.00

ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33


Consensus pattern (50 bp):   
TTAAAAGGACCGTCTCCCGCTTATCCTTTGAACTGTCTACCAATTCAATC

Found at i:338 original size:50 final size:50

Alignment explanation


    Indices: 279--445  Score: 289
    Period size: 50  Copynumber: 3.3  Consensus size: 50

        269 GAACCGGATG

                                     *                *       
        279 TGGCTTGTGGAAAAGCCCATGTTGAGAATTGACTCGTATGGACACGAGTT
          1 TGGCTTGTGGAAAAGCCCATGTTGATAATTGACTCGTATGGAAACGAGTT

              *              **                               
        329 TGCCTTGTGGAAAAGCCTGTGTTGATAATTGACTCGTATGGAAACGAGTT
          1 TGGCTTGTGGAAAAGCCCATGTTGATAATTGACTCGTATGGAAACGAGTT

                                                              
        379 TGGCTTGTGGAAAAGCCCATGTTGATAATTGACTCGTATGGAAACGAGTT
          1 TGGCTTGTGGAAAAGCCCATGTTGATAATTGACTCGTATGGAAACGAGTT

                             
        429 TGGCTTGTGGAAAAGCC
          1 TGGCTTGTGGAAAAGCC

        446 AAAACATTCG


Statistics
Matches: 109,  Mismatches: 8, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  50  109  1.00

ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29


Consensus pattern (50 bp):   
TGGCTTGTGGAAAAGCCCATGTTGATAATTGACTCGTATGGAAACGAGTT

Found at i:1195 original size:50 final size:50

Alignment explanation


    Indices: 1053--1198  Score: 220
    Period size: 50  Copynumber: 2.9  Consensus size: 50

       1043 AATGTCCTTC

                 *               *              *     *       
       1053 GAAAAACGAATTTTGATCTTGGACTCACAAATGGAATGCAATCTTACTTT
          1 GAAAAGCGAATTTTGATCTTGAACTCACAAATGGAAAGCAATTTTACTTT

                   *                 *   *                    
       1103 GAAAAGCAAATTTTGATCTTGAACTTACACATGGAAAGCAATTTTACTTT
          1 GAAAAGCGAATTTTGATCTTGAACTCACAAATGGAAAGCAATTTTACTTT

                                       *                  
       1153 GAAAAGCGAATTTTGATCTTGAACTCATAAATGGAAAGCAATTTTA
          1 GAAAAGCGAATTTTGATCTTGAACTCACAAATGGAAAGCAATTTTA

       1199 TTGTAAAACT


Statistics
Matches: 85,  Mismatches: 11, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  50   85  1.00

ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32


Consensus pattern (50 bp):   
GAAAAGCGAATTTTGATCTTGAACTCACAAATGGAAAGCAATTTTACTTT
Done.