Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: CotAD_64863

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: 2229
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27


Found at i:1718 original size:159 final size:159

Alignment explanation


    Indices: 1490--1798  Score: 444
    Period size: 159  Copynumber: 1.9  Consensus size: 159

       1480 TCACCACAAG

                                           *                 * *             
       1490 CTGATGATGCTGAAGCCAGTCAAGTTGCATCCAAGAATTGCTTGGTACCTAGAATTGAAGCTGAT
          1 CTGATGATGCTGAAGCCAGTCAAGTTGCATCAAAGAATTGCTTGGTACCAAAAATTGAAGCTGAT

                          *   *                                     *        
       1555 GATGATTTTGGCAATTGTTATGCTGGAAATTCTAGCCCTGCTGCCCAACTCACTACTATAGAATA
         66 GATGATTTTGGCAAATGTCATGCTGGAAATTCTAGCCCTGCTGCCCAACTCACTACCATAGAATA

                                         
       1620 TCAAGAAAATGAAGAGGAAGCCAATCTTA
        131 TCAAGAAAATGAAGAGGAAGCCAATCTTA

                                         *                                   
       1649 CTGATGATGCT-ATAGCCAGTCAAGTTGCGTCTAAAG-ATTGGC-TGGTACCAAAAATTGAAGCT
          1 CTGATGATGCTGA-AGCCAGTCAAGTTGCATC-AAAGAATT-GCTTGGTACCAAAAATTGAAGCT

                                     *             *           *  *  *      *
       1711 GATGATGATTTTGGCAAATGTCATGTTGGAAATTCTAGCTCTGCTGCCCAATTCCCTGCCATAGG
         63 GATGATGATTTTGGCAAATGTCATGCTGGAAATTCTAGCCCTGCTGCCCAACTCACTACCATAGA

                       *           
       1776 ATATCAAGAAACTGAAGAGGAAG
        128 ATATCAAGAAAATGAAGAGGAAG

       1799 TCCAGCCTAC


Statistics
Matches: 133,  Mismatches: 14, Indels: 6
        0.87            0.09        0.04

Matches are distributed among these distances:
 158    1  0.01
 159  127  0.95
 160    5  0.04

ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28


Consensus pattern (159 bp):   
CTGATGATGCTGAAGCCAGTCAAGTTGCATCAAAGAATTGCTTGGTACCAAAAATTGAAGCTGAT
GATGATTTTGGCAAATGTCATGCTGGAAATTCTAGCCCTGCTGCCCAACTCACTACCATAGAATA
TCAAGAAAATGAAGAGGAAGCCAATCTTA
Done.