Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g00038.F1

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, 713

Length: 1189
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31


Found at i:987 original size:55 final size:55

Alignment explanation


    Indices: 906--1054  Score: 157
    Period size: 54  Copynumber: 2.7  Consensus size: 55

        896 AAGTAATCTG

                     *    *                                           
        906 TCAGTCTTTGGAGCTAAACTGATGTTAGTTCATTGGAGTC-T-TGCTCTACTTTTGCT
          1 TCAG-CTTTAGAGCAAAACTGATGTTAGTTCA-TGGAGTCTTATGCTCTAC-TTTGCT

                                             *                    * 
        962 TCAGCTTTAGAGCAAAACTGATGTTAGTTC--GTAGTCTTAATGCTCTACTTTGGT
          1 TCAGCTTTAGAGCAAAACTGATGTTAGTTCATGGAGTCTT-ATGCTCTACTTTGCT

                  *          *     *                 
       1016 TCAGCTGTAGAGCAAAATTGATGATAGTTCAT--AGTCTTA
          1 TCAGCTTTAGAGCAAAACTGATGTTAGTTCATGGAGTCTTA

       1055 ACGCTCTGTC


Statistics
Matches: 81,  Mismatches: 7, Indels: 13
        0.80            0.07        0.13

Matches are distributed among these distances:
  52    5  0.06
  53    2  0.02
  54   38  0.47
  55   32  0.40
  56    4  0.05

ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39


Consensus pattern (55 bp):   
TCAGCTTTAGAGCAAAACTGATGTTAGTTCATGGAGTCTTATGCTCTACTTTGCT

Found at i:1044 original size:54 final size:55

Alignment explanation


    Indices: 947--1061  Score: 169
    Period size: 54  Copynumber: 2.1  Consensus size: 55

        937 ATTGGAGTCT

                                 *                *      *         
        947 TGCTCTACTTTTGCTTCAGCTTTAGAGCAAAACTGATGTTAGTTCGTAGTCTTAA
          1 TGCTCTACTTTTGCTTCAGCTGTAGAGCAAAACTGATGATAGTTCATAGTCTTAA

                         *                  *                      
       1002 TGCTCTAC-TTTGGTTCAGCTGTAGAGCAAAATTGATGATAGTTCATAGTCTTAA
          1 TGCTCTACTTTTGCTTCAGCTGTAGAGCAAAACTGATGATAGTTCATAGTCTTAA

            *     
       1056 CGCTCT
          1 TGCTCT

       1062 GTCTATCTAT


Statistics
Matches: 54,  Mismatches: 6, Indels: 1
        0.89            0.10        0.02

Matches are distributed among these distances:
  54   46  0.85
  55    8  0.15

ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38


Consensus pattern (55 bp):   
TGCTCTACTTTTGCTTCAGCTGTAGAGCAAAACTGATGATAGTTCATAGTCTTAA
Done.