Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006305.1 Corchorus capsularis cultivar CVL-1 contig06326, 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: 2839
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27


Found at i:1947 original size:181 final size:179

Alignment explanation


    Indices: 1642--2003  Score: 602
    Period size: 181  Copynumber: 2.0  Consensus size: 179

       1632 TTCATGAAAG

                                             *                               
       1642 TTGTAGACCATGGAATTACCTTTAAATAGACACTTGAATCAACTTGATCGGTCAAATAGAAAAAA
          1 TTGTAGACCATGGAATTACCTTTAAATAGACACCTGAATCAACTTGATCGGTCAAATAGAAAAAA

                   *                              *                       *  
       1707 AATAAAAGAATTAAAGCCGAAACATTCAATCATCCAACCCATAATTGTAAGTGATTAAATAGTAT
         66 AATAAAACAATTAAAGCCGAAACATTCAATCATCCAACACATAATTGTAAGTGATTAAATAGCAT

                                                               
       1772 AAATTATAAAAGTATGAGGATCATTTAATAAATAATCCAACAAAAAAATGA
        131 AAATTATAAAAGTATGAGGATCATTTAATAAATAATCC-AC-AAAAAATGA

                                                                          *  
       1823 TTGTAGACCATGGAATTACCTTTAAATAGACACCTGAATCAACCTTGATCGGTCAAATAGGATAA
          1 TTGTAGACCATGGAATTACCTTTAAATAGACACCTGAATCAA-CTTGATCGGTCAAATA-GAAAA

                                             *       *                       
       1888 AAAA-AAAACAATTAAAGCCGAAACATTCAATCGTCCAACATATAATTGTAAG-GATTAAATAGC
         64 AAAATAAAACAATTAAAGCCGAAACATTCAATCATCCAACACATAATTGTAAGTGATTAAATAGC

                                                  *            
       1951 ATAAATTATAAAAGTATGAGGATCATTTAATAAATAATTCACAAAAAATGA
        129 ATAAATTATAAAAGTATGAGGATCATTTAATAAATAATCCACAAAAAATGA

              
       2002 TT
          1 TT

       2004 TGTTTATGGA


Statistics
Matches: 171,  Mismatches: 8, Indels: 6
        0.92            0.04        0.03

Matches are distributed among these distances:
 179   11  0.06
 180    2  0.01
 181   90  0.53
 182   60  0.35
 183    8  0.05

ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27


Consensus pattern (179 bp):   
TTGTAGACCATGGAATTACCTTTAAATAGACACCTGAATCAACTTGATCGGTCAAATAGAAAAAA
AATAAAACAATTAAAGCCGAAACATTCAATCATCCAACACATAATTGTAAGTGATTAAATAGCAT
AAATTATAAAAGTATGAGGATCATTTAATAAATAATCCACAAAAAATGA
Done.