Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006235.1 Corchorus capsularis cultivar CVL-1 contig06254, 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: 1807
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Found at i:522 original size:18 final size:18

Alignment explanation


    Indices: 501--538  Score: 76
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        491 TAACAACCAT

                              
        501 ATAATGAATAATAAATAA
          1 ATAATGAATAATAAATAA

                              
        519 ATAATGAATAATAAATAA
          1 ATAATGAATAATAAATAA

              
        537 AT
          1 AT

        539 CTTTTTTGGC


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   20  1.00

ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29


Consensus pattern (18 bp):   
ATAATGAATAATAAATAA

Found at i:1698 original size:16 final size:16

Alignment explanation


    Indices: 1677--1710  Score: 68
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       1667 GTTTTATATA

                            
       1677 TAATGCATATTTTATT
          1 TAATGCATATTTTATT

                            
       1693 TAATGCATATTTTATT
          1 TAATGCATATTTTATT

              
       1709 TA
          1 TA

       1711 TTATATTAAT


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56


Consensus pattern (16 bp):   
TAATGCATATTTTATT

Found at i:1726 original size:10 final size:10

Alignment explanation


    Indices: 1711--1748  Score: 53
    Period size: 10  Copynumber: 4.0  Consensus size: 10

       1701 ATTTTATTTA

                      
       1711 TTATATTAAT
          1 TTATATTAAT

                      
       1721 TTATA-TAA-
          1 TTATATTAAT

            *         
       1729 ATATATTAAT
          1 TTATATTAAT

                      
       1739 TTATATTAAT
          1 TTATATTAAT

       1749 AATACTCTAT


Statistics
Matches: 24,  Mismatches: 2, Indels: 4
        0.80            0.07        0.13

Matches are distributed among these distances:
   8    4  0.17
   9    6  0.25
  10   14  0.58

ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55


Consensus pattern (10 bp):   
TTATATTAAT

Found at i:1733 original size:18 final size:18

Alignment explanation


    Indices: 1712--1749  Score: 67
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1702 TTTTATTTAT

                              
       1712 TATATTAATTTATATAAA
          1 TATATTAATTTATATAAA

                           *  
       1730 TATATTAATTTATATTAA
          1 TATATTAATTTATATAAA

              
       1748 TA
          1 TA

       1750 ATACTCTATT


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53


Consensus pattern (18 bp):   
TATATTAATTTATATAAA
Done.