Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010215.1 Corchorus olitorius cultivar O-4 contig10247, 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: 2205
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:335 original size:27 final size:26

Alignment explanation


    Indices: 305--394  Score: 81
    Period size: 27  Copynumber: 3.3  Consensus size: 26

        295 GACCACACTG

                      *               
        305 CCCCCTGAAGCACAAATGACTAAAAT
          1 CCCCCTGAAGTACAAATGACTAAAAT

                     **   *       *     
        331 ACCCCCTAGGTGTAAAAATGACCAAAAT
          1 -CCCCCT-GAAGTACAAATGACTAAAAT

            *           *              
        359 GCCCCTGAACGTGCAAATGACTAAAAT
          1 CCCCCTGAA-GTACAAATGACTAAAAT

            *        
        386 GCCCCTGAA
          1 CCCCCTGAA

        395 TGTCCTTAAA


Statistics
Matches: 50,  Mismatches: 11, Indels: 4
        0.77            0.17        0.06

Matches are distributed among these distances:
  26    1  0.02
  27   34  0.68
  28   15  0.30

ACGTcount: A:0.39, C:0.29, G:0.16, T:0.17


Consensus pattern (26 bp):   
CCCCCTGAAGTACAAATGACTAAAAT

Found at i:1632 original size:29 final size:29

Alignment explanation


    Indices: 1554--1634  Score: 99
    Period size: 29  Copynumber: 2.8  Consensus size: 29

       1544 CATTAGGATC

                                   *      
       1554 ACCTAGGGGCATTTTGGTCATTTTTAAAAA
          1 ACCTAGGGGCATTTTGGTCA-TTCTAAAAA

               * *                  *  * 
       1584 ACCCAAGGGCATTTTGGTCATTCTCAAGA
          1 ACCTAGGGGCATTTTGGTCATTCTAAAAA

             *                    
       1613 ATCTAGGGGCATTTTGGTCATT
          1 ACCTAGGGGCATTTTGGTCATT

       1635 TGCGCATTCA


Statistics
Matches: 43,  Mismatches: 8, Indels: 1
        0.83            0.15        0.02

Matches are distributed among these distances:
  29   25  0.58
  30   18  0.42

ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35


Consensus pattern (29 bp):   
ACCTAGGGGCATTTTGGTCATTCTAAAAA
Done.