Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000007.1 Corchorus olitorius cultivar O-4 contig00007, 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, 904

Length: 1507
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33


Found at i:1024 original size:22 final size:22

Alignment explanation


    Indices: 999--1059  Score: 63
    Period size: 21  Copynumber: 2.8  Consensus size: 22

        989 ATTGAATATT

                              *    
        999 TTATGAAATTTTGATAACTATC-
          1 TTATGAAATTTTGATAACCA-CG

                *                 
       1021 TTATTAAA-TTTGATAACCACG
          1 TTATGAAATTTTGATAACCACG

              *               
       1042 TTTTGGAAATTTTGATAA
          1 TTAT-GAAATTTTGATAA

       1060 TTTACCTATG


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

Matches are distributed among these distances:
  20    1  0.03
  21   13  0.41
  22   10  0.31
  23    8  0.25

ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44


Consensus pattern (22 bp):   
TTATGAAATTTTGATAACCACG

Found at i:1119 original size:21 final size:21

Alignment explanation


    Indices: 1073--1150  Score: 61
    Period size: 21  Copynumber: 3.6  Consensus size: 21

       1063 ACCTATGAAA

                        *           
       1073 TATGAAATTTTAATAAACCATC-C
          1 TATGAAATTTT-GT-AACC-TCTC

                              *  
       1096 TATGAAATTTTGTAACCTTTC
          1 TATGAAATTTTGTAACCTCTC

                  *               
       1117 TATG-ATTTTTGATAACCTCTC
          1 TATGAAATTTTG-TAACCTCTC

             *   *       
       1138 TGTGAGATTTTGT
          1 TATGAAATTTTGT

       1151 TAATCTCCCT


Statistics
Matches: 45,  Mismatches: 7, Indels: 8
        0.75            0.12        0.13

Matches are distributed among these distances:
  20    7  0.16
  21   21  0.47
  22    6  0.13
  23   11  0.24

ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45


Consensus pattern (21 bp):   
TATGAAATTTTGTAACCTCTC
Done.