Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_18522

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: 1869
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33


Found at i:1040 original size:105 final size:105

Alignment explanation


    Indices: 874--1074  Score: 262
    Period size: 105  Copynumber: 1.9  Consensus size: 105

        864 CTACACATAT

                                  *   *  *                  **               
        874 AATATATTGATCGATGCACGTTGCAAGGAGGGGATGATTTCAGAAGCTGTAGAAATCGTTGACAC
          1 AATATATTGATCGATGCACGTTACAAAGAAGGGATGATTTCAGAAGCTAAAGAAATCGTTGACAC

                        *                           
        939 AATGAGAAAGCATGGCATTGAGCCTAATGTTATCACGTAC
         66 AATGAGAAAGCAAGGCATTGAGCCTAATGTTATCACGTAC

                               *                 *                 *  *      
        979 AATATA-TGCATCGATGCATGTTACAAAGAAGGGATGCTTTCTA-AAGCTAAAGATATTGTTGAC
          1 AATATATTG-ATCGATGCACGTTACAAAGAAGGGATGATTTC-AGAAGCTAAAGAAATCGTTGAC

                   *                   *     
       1042 ACAATGATAAAGCAAGGCATTGAGCCTGATGTT
         64 ACAATGAGAAAGCAAGGCATTGAGCCTAATGTT

       1075 GTTACCTATA


Statistics
Matches: 82,  Mismatches: 12, Indels: 4
        0.84            0.12        0.04

Matches are distributed among these distances:
 104    2  0.02
 105   79  0.96
 106    1  0.01

ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27


Consensus pattern (105 bp):   
AATATATTGATCGATGCACGTTACAAAGAAGGGATGATTTCAGAAGCTAAAGAAATCGTTGACAC
AATGAGAAAGCAAGGCATTGAGCCTAATGTTATCACGTAC
Done.