Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00836.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, 722

Length: 1204
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40


Found at i:543 original size:7 final size:7

Alignment explanation


    Indices: 527--573  Score: 62
    Period size: 7  Copynumber: 6.9  Consensus size: 7

        517 ATTTTAGTTC

                   
        527 ATTA-TT
          1 ATTATTT

                   
        533 ATTATTT
          1 ATTATTT

                   
        540 ATTATTT
          1 ATTATTT

                   
        547 ATTATTT
          1 ATTATTT

                   
        554 ATTA-TT
          1 ATTATTT

             *      
        560 AGTAGTTT
          1 ATTA-TTT

                  
        568 ATTATT
          1 ATTATT

        574 ATTTTGACTA


Statistics
Matches: 36,  Mismatches: 2, Indels: 5
        0.84            0.05        0.12

Matches are distributed among these distances:
   6    9  0.25
   7   22  0.61
   8    5  0.14

ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66


Consensus pattern (7 bp):   
ATTATTT

Found at i:550 original size:14 final size:13

Alignment explanation


    Indices: 527--594  Score: 75
    Period size: 14  Copynumber: 5.1  Consensus size: 13

        517 ATTTTAGTTC

                         
        527 ATTATTATTATTT
          1 ATTATTATTATTT

                          
        540 ATTATTTATTATTT
          1 ATTA-TTATTATTT

                   *      
        554 ATTATTAGTAGTTT
          1 ATTATTATTA-TTT

                        *
        568 ATTATTATT-TTG
          1 ATTATTATTATTT

             *            
        580 ACTATTATGTATTT
          1 ATTATTAT-TATTT

             
        594 A
          1 A

        595 ATTTCTTTCA


Statistics
Matches: 46,  Mismatches: 5, Indels: 7
        0.79            0.09        0.12

Matches are distributed among these distances:
  12    9  0.20
  13   10  0.22
  14   27  0.59

ACGTcount: A:0.29, C:0.01, G:0.06, T:0.63


Consensus pattern (13 bp):   
ATTATTATTATTT

Found at i:1176 original size:29 final size:26

Alignment explanation


    Indices: 1140--1202  Score: 76
    Period size: 24  Copynumber: 2.4  Consensus size: 26

       1130 TCGGTTCTAC

                             *           
       1140 TTTTATTTATTTTATTTGTGAGACTTTTA
          1 TTTTATTT-TTTTA-TTATGA-ACTTTTA

                                      
       1169 TTTTA--TTTTTATTATGAACTTTTA
          1 TTTTATTTTTTTATTATGAACTTTTA

                      
       1193 TTTTATTTTT
          1 TTTTATTTTT

       1203 AT


Statistics
Matches: 31,  Mismatches: 1, Indels: 7
        0.79            0.03        0.18

Matches are distributed among these distances:
  24   12  0.39
  25    5  0.16
  26    8  0.26
  27    1  0.03
  29    5  0.16

ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70


Consensus pattern (26 bp):   
TTTTATTTTTTTATTATGAACTTTTA
Done.