Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g02675.F2

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: 2186
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29


Found at i:101 original size:6 final size:6

Alignment explanation


    Indices: 90--128  Score: 51
    Period size: 6  Copynumber: 6.5  Consensus size: 6

         80 CCAATCTCCG

                                     *      *      *     
         90 CCGCCT CCGCCT CCGCCT CCGCTT CCGCTT CCGCTT CCG
          1 CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCG

        129 TATTTACTGA


Statistics
Matches: 32,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
   6   32  1.00

ACGTcount: A:0.00, C:0.59, G:0.18, T:0.23


Consensus pattern (6 bp):   
CCGCCT

Found at i:105 original size:12 final size:12

Alignment explanation


    Indices: 90--128  Score: 60
    Period size: 12  Copynumber: 3.2  Consensus size: 12

         80 CCAATCTCCG

                      * 
         90 CCGCCTCCGCCT
          1 CCGCCTCCGCTT

                        
        102 CCGCCTCCGCTT
          1 CCGCCTCCGCTT

                *       
        114 CCGCTTCCGCTT
          1 CCGCCTCCGCTT

               
        126 CCG
          1 CCG

        129 TATTTACTGA


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  12   25  1.00

ACGTcount: A:0.00, C:0.59, G:0.18, T:0.23


Consensus pattern (12 bp):   
CCGCCTCCGCTT

Found at i:2048 original size:34 final size:34

Alignment explanation


    Indices: 2005--2073  Score: 138
    Period size: 34  Copynumber: 2.0  Consensus size: 34

       1995 GAGAAAGGGT

                                              
       2005 TTTAAATTCATATATCAAATCAATTGTATACAGA
          1 TTTAAATTCATATATCAAATCAATTGTATACAGA

                                              
       2039 TTTAAATTCATATATCAAATCAATTGTATACAGA
          1 TTTAAATTCATATATCAAATCAATTGTATACAGA

             
       2073 T
          1 T

       2074 CTCATTTCTC


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  34   35  1.00

ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39


Consensus pattern (34 bp):   
TTTAAATTCATATATCAAATCAATTGTATACAGA

Found at i:2063 original size:17 final size:17

Alignment explanation


    Indices: 2009--2063  Score: 51
    Period size: 17  Copynumber: 3.2  Consensus size: 17

       1999 AAGGGTTTTA

                             
       2009 AATTCATATATCAAATC
          1 AATTCATATATCAAATC

                 *          * *
       2026 AATT-GTATA-CAGATTTA
          1 AATTCATATATCA-A-ATC

                             
       2043 AATTCATATATCAAATC
          1 AATTCATATATCAAATC

                
       2060 AATT
          1 AATT

       2064 GTATACAGAT


Statistics
Matches: 28,  Mismatches: 6, Indels: 8
        0.67            0.14        0.19

Matches are distributed among these distances:
  15    2  0.07
  16    5  0.18
  17   14  0.50
  18    5  0.18
  19    2  0.07

ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38


Consensus pattern (17 bp):   
AATTCATATATCAAATC
Done.