Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007274.1 Corchorus capsularis cultivar CVL-1 contig07295, 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: 17400
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30

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


Found at i:774 original size:33 final size:33

Alignment explanation


    Indices: 734--840  Score: 126
    Period size: 33  Copynumber: 3.2  Consensus size: 33

        724 AGCACTAGTG

                    *            *           
        734 ACCGGCCATGCGACTTGGAGAAGTCCGGCCAAC
          1 ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC

              *      *             *       * 
        767 ACTGGCCACACGACTTGGAGATGCCCGGCCATC
          1 ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC

                          *    *             
        800 ACCGGCCACGCGACATGGACATGTCCGGCC-AC
          1 ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC

                     
        832 AACCGGCCA
          1 -ACCGGCCA

        841 TCACTAGGCG


Statistics
Matches: 61,  Mismatches: 12, Indels: 2
        0.81            0.16        0.03

Matches are distributed among these distances:
  32    1  0.02
  33   60  0.98

ACGTcount: A:0.23, C:0.37, G:0.28, T:0.11


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGAGATGTCCGGCCAAC

Found at i:10144 original size:19 final size:18

Alignment explanation


    Indices: 10120--10155  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

      10110 TGAAGATTTC

                               
      10120 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
      10139 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

      10156 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT

Found at i:17395 original size:20 final size:21

Alignment explanation


    Indices: 17356--17396  Score: 57
    Period size: 20  Copynumber: 2.0  Consensus size: 21

      17346 AGTCGACTAA

                          **     
      17356 GAGCAAAGTCGACTTTACAAG
          1 GAGCAAAGTCGACTACACAAG

                                 
      17377 GAGCAAA-TCGACTACACAAG
          1 GAGCAAAGTCGACTACACAAG

      17397 TCGA


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  20   11  0.61
  21    7  0.39

ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15


Consensus pattern (21 bp):   
GAGCAAAGTCGACTACACAAG
Done.