Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01647.F4

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: 4351
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36


Found at i:3622 original size:24 final size:24

Alignment explanation


    Indices: 3588--3649  Score: 81
    Period size: 24  Copynumber: 2.6  Consensus size: 24

       3578 GATATATCAG

                  *            *    
       3588 CTCGTAAGAGCTTACTGTTTTCAA
          1 CTCGTATGAGCTTACTGTTCTCAA

                                    *
       3612 CTCG-ATGGAGCTTACTGTTCTCAG
          1 CTCGTAT-GAGCTTACTGTTCTCAA

                          
       3636 CTCGTATGAGCTTA
          1 CTCGTATGAGCTTA

       3650 TTGATTCAAC


Statistics
Matches: 33,  Mismatches: 3, Indels: 4
        0.82            0.08        0.10

Matches are distributed among these distances:
  23    1  0.03
  24   30  0.91
  25    2  0.06

ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35


Consensus pattern (24 bp):   
CTCGTATGAGCTTACTGTTCTCAA

Found at i:3647 original size:48 final size:46

Alignment explanation


    Indices: 3569--3684  Score: 126
    Period size: 48  Copynumber: 2.4  Consensus size: 46

       3559 CAGCTCGAAT

                                                 *            *
       3569 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTTCAACTCGAT-G
          1 GAGCTTACCG-T-T-TCAGCTCGTAAGAGCTTACTG-ATTCAACTC-ATCA

                    *              *       *               
       3619 GAGCTTACTGTTCTCAGCTCGTATGAGCTTATTGATTCAACTCATCA
          1 GAGCTTACCGTT-TCAGCTCGTAAGAGCTTACTGATTCAACTCATCA

                               
       3666 GAGCTTACCGTTTCAGCTC
          1 GAGCTTACCGTTTCAGCTC

       3685 AATAGATCTT


Statistics
Matches: 58,  Mismatches: 7, Indels: 6
        0.82            0.10        0.08

Matches are distributed among these distances:
  46    9  0.16
  47   19  0.33
  48   20  0.34
  49    1  0.02
  50    9  0.16

ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34


Consensus pattern (46 bp):   
GAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGATTCAACTCATCA
Done.