Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010079.1 Corchorus capsularis cultivar CVL-1 contig10100, 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: 13523
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34


Found at i:5685 original size:13 final size:13

Alignment explanation


    Indices: 5658--5708  Score: 54
    Period size: 13  Copynumber: 4.2  Consensus size: 13

       5648 ACTTGTGAAT

                  *   *  
       5658 AAGAAAGAGAGAG
          1 AAGAAAAAGAAAG

                         
       5671 AAGAAAAAGAAAG
          1 AAGAAAAAGAAAG

                        *
       5684 AA-AAAAA-AAAA
          1 AAGAAAAAGAAAG

                         
       5695 AAG-AAAAGAAAG
          1 AAGAAAAAGAAAG

              
       5707 AA
          1 AA

       5709 AGCAATGGGA


Statistics
Matches: 32,  Mismatches: 4, Indels: 5
        0.78            0.10        0.12

Matches are distributed among these distances:
  11    9  0.28
  12   10  0.31
  13   13  0.41

ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00


Consensus pattern (13 bp):   
AAGAAAAAGAAAG

Found at i:5710 original size:13 final size:13

Alignment explanation


    Indices: 5661--5710  Score: 52
    Period size: 15  Copynumber: 3.9  Consensus size: 13

       5651 TGTGAATAAG

                 *         
       5661 AAAGAGAGAGAAGAA
          1 AAAGAAAGA-AAG-A

                         
       5676 AAAGAAAGAAA-A
          1 AAAGAAAGAAAGA

                         
       5688 AAA-AAA-AAAGA
          1 AAAGAAAGAAAGA

                        
       5699 AAAGAAAGAAAG
          1 AAAGAAAGAAAG

       5711 CAATGGGACA


Statistics
Matches: 31,  Mismatches: 1, Indels: 8
        0.77            0.03        0.20

Matches are distributed among these distances:
  10    3  0.10
  11    7  0.23
  12    7  0.23
  13    4  0.13
  14    2  0.06
  15    8  0.26

ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00


Consensus pattern (13 bp):   
AAAGAAAGAAAGA
Done.