Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023020.1 Corchorus olitorius cultivar O-4 contig23053, 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: 3074
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36


Found at i:949 original size:31 final size:29

Alignment explanation


    Indices: 911--1023  Score: 93
    Period size: 31  Copynumber: 3.7  Consensus size: 29

        901 ATTAGAGACG

                                           
        911 GATTTGAGCCGATTTTGCAATGCAATGGACT
          1 GATTTGAGCCGATTTTGCAATG-AA-GGACT

                    * *                    
        942 GATTTGAGTCAATTTTGCAATGTTAAGGACT
          1 GATTTGAGCCGATTTTGCAATG--AAGGACT

            *    *  *         *             
        973 AATTTTAGTCGATTTTGTAAAT-ATAGGGACT
          1 GATTTGAGCCGATTTTG-CAATGA-A-GGACT

                 *              
       1004 GATTTTAGCCGATTTTGCAA
          1 GATTTGAGCCGATTTTGCAA

       1024 CATTATGGGC


Statistics
Matches: 68,  Mismatches: 10, Indels: 9
        0.78            0.11        0.10

Matches are distributed among these distances:
  29    1  0.01
  30    3  0.04
  31   59  0.87
  32    5  0.07

ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38


Consensus pattern (29 bp):   
GATTTGAGCCGATTTTGCAATGAAGGACT

Found at i:2002 original size:31 final size:31

Alignment explanation


    Indices: 1967--2069  Score: 143
    Period size: 31  Copynumber: 3.3  Consensus size: 31

       1957 AAACATAGCC

                                           
       1967 TCAATTGACAGGTGTTATTAAGTAAAGGGAG
          1 TCAATTGACAGGTGTTATTAAGTAAAGGGAG

                   **                  *   
       1998 TCAATTGTTAGGTGTTATTAAGTAAAGAGAG
          1 TCAATTGACAGGTGTTATTAAGTAAAGGGAG

                   **               *     *
       2029 TCAATTGTTAGGTGTTATTAAGTAGAGGGAC
          1 TCAATTGACAGGTGTTATTAAGTAAAGGGAG

                      
       2060 TCAATTGACA
          1 TCAATTGACA

       2070 ATTTTTTTCT


Statistics
Matches: 64,  Mismatches: 8, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  31   64  1.00

ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33


Consensus pattern (31 bp):   
TCAATTGACAGGTGTTATTAAGTAAAGGGAG
Done.