Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016515.1 Corchorus capsularis cultivar CVL-1 contig16536, 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: 3223
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30


Found at i:194 original size:26 final size:25

Alignment explanation


    Indices: 165--214  Score: 66
    Period size: 25  Copynumber: 2.0  Consensus size: 25

        155 TATGATTAAA

                                       
        165 ATGCAAC-AATACTAAGCTAAATGAAG
          1 ATGCAACTAATA-TAA-CTAAATGAAG

                         *          
        191 ATGCAACTAATATTACTAAATGAA
          1 ATGCAACTAATATAACTAAATGAA

        215 AATATGCTAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 3
        0.85            0.04        0.12

Matches are distributed among these distances:
  25    9  0.41
  26    9  0.41
  27    4  0.18

ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24


Consensus pattern (25 bp):   
ATGCAACTAATATAACTAAATGAAG

Found at i:340 original size:27 final size:27

Alignment explanation


    Indices: 310--363  Score: 65
    Period size: 28  Copynumber: 2.0  Consensus size: 27

        300 ATATTAAAAG

                                 *      
        310 TAGA-TCAAGAATGACCAAAATGCCCCC
          1 TAGAGTCAA-AATGACCAAAACGCCCCC

                   *                   
        337 TAGATGTGAAAATGACCAAAACGCCCC
          1 TAGA-GTCAAAATGACCAAAACGCCCC

        364 TGGATGACCC


Statistics
Matches: 23,  Mismatches: 2, Indels: 3
        0.82            0.07        0.11

Matches are distributed among these distances:
  27    4  0.17
  28   16  0.70
  29    3  0.13

ACGTcount: A:0.41, C:0.28, G:0.17, T:0.15


Consensus pattern (27 bp):   
TAGAGTCAAAATGACCAAAACGCCCCC
Done.