Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_01185

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: 1938
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28


Found at i:1796 original size:96 final size:96

Alignment explanation


    Indices: 1632--1824  Score: 305
    Period size: 96  Copynumber: 2.0  Consensus size: 96

       1622 TCAAGTGTAG

                 *            *              *                       *       
       1632 TGAAGGTGAAAACTTAGCTATGGAACCATCAGTTATTGAAAAGGAAGGGTATCTTATGGTCCAAC
          1 TGAAGATGAAAACTTAGCAATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC

                *                          
       1697 CTAGTCGACAGGGAAGTTACATTCCTGATAA
         66 CTAGGCGACAGGGAAGTTACATTCCTGATAA

                           *              *                                  
       1728 TGAAGATGAAAACTTTGCAATGGAACCATCGGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
          1 TGAAGATGAAAACTTAGCAATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC

                               *       *   
       1793 CTAGGCGACAGGGAAGTTATATTCCTGGTAA
         66 CTAGGCGACAGGGAAGTTACATTCCTGATAA

             
       1824 T
          1 T

       1825 CTTGGCTCAT


Statistics
Matches: 88,  Mismatches: 9, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  96   88  1.00

ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26


Consensus pattern (96 bp):   
TGAAGATGAAAACTTAGCAATGGAACCATCAGTCATTGAAAAGGAAGGGTATCTTATAGTCCAAC
CTAGGCGACAGGGAAGTTACATTCCTGATAA
Done.