Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000446.1 Corchorus capsularis cultivar CVL-1 contig00446, 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: 2841
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35


Found at i:985 original size:34 final size:34

Alignment explanation


    Indices: 946--1013  Score: 118
    Period size: 34  Copynumber: 2.0  Consensus size: 34

        936 AAGTTGTTCT

                   *                          
        946 TATCAATTGAAGGAATAGTGGAAATTGGATTGGC
          1 TATCAATCGAAGGAATAGTGGAAATTGGATTGGC

                          *                   
        980 TATCAATCGAAGGATTAGTGGAAATTGGATTGGC
          1 TATCAATCGAAGGAATAGTGGAAATTGGATTGGC

       1014 ATTCGTGGGA


Statistics
Matches: 32,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  34   32  1.00

ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29


Consensus pattern (34 bp):   
TATCAATCGAAGGAATAGTGGAAATTGGATTGGC

Found at i:1566 original size:70 final size:69

Alignment explanation


    Indices: 1470--1600  Score: 181
    Period size: 70  Copynumber: 1.9  Consensus size: 69

       1460 CAGATAATGT

                           *    **           * *         * *   *             
       1470 TCATCTTTTTTAAATTTCAATTTTTTCATGAGTTATTGGTTATACTAGTTGGCTAATGTTTTAAT
          1 TCATCTTTTTTAAATGTCAAAATTTTCATGAGTCACTGGTTATACCAATTGACTAATGTTTTAAT

                
       1535 ATTC
         66 ATTC

                                                                          
       1539 TCATCTTTGTTTAAATGTCAAAATTTTCATGAGTCACTGGTTATACCAATTGACTAATGTTT
          1 TCATCTTT-TTTAAATGTCAAAATTTTCATGAGTCACTGGTTATACCAATTGACTAATGTTT

       1601 AAGGATCATC


Statistics
Matches: 53,  Mismatches: 8, Indels: 1
        0.85            0.13        0.02

Matches are distributed among these distances:
  69    8  0.15
  70   45  0.85

ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49


Consensus pattern (69 bp):   
TCATCTTTTTTAAATGTCAAAATTTTCATGAGTCACTGGTTATACCAATTGACTAATGTTTTAAT
ATTC
Done.