Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00612.F5

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: 3248
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33


Found at i:1374 original size:181 final size:185

Alignment explanation


    Indices: 1042--1385  Score: 454
    Period size: 181  Copynumber: 1.9  Consensus size: 185

       1032 CCCCAAGATG

                                 **                                         *
       1042 TTTAAAGTTGCTGTGACACTTGTTGTATCTGTTGGCCTGTAAGCTTTCCTTTCCTTCTGCTACTG
          1 TTTAAAGTTGCTGTGACACTTCCTGTATCTGTTGGCCTGTAAGCTTTCC-TTCCTTCTGC-ACTA

                       *  *                            *                     
       1107 TAAGTTTTTCATGGTAACATGAATTGATATACTAATGCCAACTGACAACAAAATGTAGCAAGTAT
         64 TAAGTTTTTCAGGGAAACATGAATTGATATACTAATGCCAACTAACAACAAAATGTAGCAAGTAT

                                                                     
       1172 ATTACGATATAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
        129 ATTACGATATAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA

                             *                                               
       1229 TTTAAAGTTGCTGTGACGCTTCCTGTATCTGTTGGCCTGTAAGCATTT-C-T-CTTCT-C-CTAT
          1 TTTAAAGTTGCTGTGACACTTCCTGTATCTGTTGGCCTGTAAGC-TTTCCTTCCTTCTGCACTAT

                                                 *       *     *             
       1289 AA-TATTTTCAGGGAAACATGAATTGATATACTAATGGCAACTAAGAACAATATGTAGCGAA-TA
         65 AAGT-TTTTCAGGGAAACATGAATTGATATACTAATGCCAACTAACAACAAAATGTAGC-AAGTA

                       *   *                    
       1352 -AGTTAAC-ATTTAATCTTTCTTATTAATCAATTCA
        128 TA-TT-ACGATATAAACTTTCTTATTAATCAATTCA

       1386 ACATACATCC


Statistics
Matches: 140,  Mismatches: 12, Indels: 16
        0.83            0.07        0.10

Matches are distributed among these distances:
 180    2  0.01
 181   82  0.59
 182    4  0.03
 183    1  0.01
 184    5  0.04
 185    1  0.01
 187   42  0.30
 188    3  0.02

ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38


Consensus pattern (185 bp):   
TTTAAAGTTGCTGTGACACTTCCTGTATCTGTTGGCCTGTAAGCTTTCCTTCCTTCTGCACTATA
AGTTTTTCAGGGAAACATGAATTGATATACTAATGCCAACTAACAACAAAATGTAGCAAGTATAT
TACGATATAAACTTTCTTATTAATCAATTCATCTTACATTGAACAATAATTACTA
Done.