Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00441.N1

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, 840

Length: 1400
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32


Found at i:238 original size:26 final size:26

Alignment explanation


    Indices: 199--308  Score: 184
    Period size: 26  Copynumber: 4.2  Consensus size: 26

        189 TGATACAAAT

                     *                
        199 TGATAATAGATTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                                   *  
        225 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                   *                  
        251 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                   *                  
        277 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                  
        303 TGATAA
          1 TGATAA

        309 GAATATCATG


Statistics
Matches: 80,  Mismatches: 4, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  26   80  1.00

ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37


Consensus pattern (26 bp):   
TGATAATAGGTTAGGTAAATGTTTCA

Found at i:1053 original size:27 final size:27

Alignment explanation


    Indices: 1012--1150  Score: 174
    Period size: 27  Copynumber: 5.2  Consensus size: 27

       1002 GAGGAAGCGT

                      *                
       1012 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
       1039 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
       1066 TCTGGTGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                             * *        
       1093 TCTGGTGGCTCTG-CACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   *     *     *      *
       1120 TCTGGTGACTCTGTCAC-ATTATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                 
       1146 TCTGG
          1 TCTGG

       1151 CAGCTATGCT


Statistics
Matches: 101,  Mismatches: 9, Indels: 5
        0.88            0.08        0.04

Matches are distributed among these distances:
  26   14  0.14
  27   84  0.83
  28    3  0.03

ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Found at i:1097 original size:54 final size:54

Alignment explanation


    Indices: 1012--1150  Score: 192
    Period size: 54  Copynumber: 2.6  Consensus size: 54

       1002 GAGGAAGCGT

                      *       *       *                            
       1012 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTG-CACAAATATCTGTA

                                                       * *        
       1066 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCACAAATATCTGTA

                   *     *                  
       1120 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG

       1151 CAGCTATGCT


Statistics
Matches: 77,  Mismatches: 7, Indels: 3
        0.89            0.08        0.03

Matches are distributed among these distances:
  53   22  0.29
  54   55  0.71

ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35


Consensus pattern (54 bp):   
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCACAAATATCTGTA

Done.