Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_26628

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: 1992
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34


Found at i:1308 original size:72 final size:71

Alignment explanation


    Indices: 1246--1404  Score: 214
    Period size: 72  Copynumber: 2.2  Consensus size: 71

       1236 TTTGAGTTAT

                            *            *                  *                
       1246 AACAACATTG-GTGGTTCAATACCAGATTTCAATTTTGATCTTGTGAAGCTTACTTATCTTGATT
          1 AACAAC-TTGAGTGGTCCAATACCAGATTCCAATTTTGATCTTGTGAACCTTACTTATCTTGATT

                    
       1310 TGTCATCA
         65 TGTCAT-A

                                           *                             *   
       1318 AACAACTTGAGTGGTCCAATACCAGATTCCATTTTTGATCTTGTGAACCTTACTTCA-CTTTATT
          1 AACAACTTGAGTGGTCCAATACCAGATTCCAATTTTGATCTTGTGAACCTTACTT-ATCTTGATT

                    
       1382 TGTCATCA
         65 TGTCAT-A

                      *    
       1390 AACAACTTGAATGGT
          1 AACAACTTGAGTGGT

       1405 GTGATCAAGT


Statistics
Matches: 79,  Mismatches: 6, Indels: 4
        0.89            0.07        0.04

Matches are distributed among these distances:
  71    3  0.04
  72   75  0.95
  73    1  0.01

ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38


Consensus pattern (71 bp):   
AACAACTTGAGTGGTCCAATACCAGATTCCAATTTTGATCTTGTGAACCTTACTTATCTTGATTT
GTCATA
Done.