Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00164.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: 4898
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36


Found at i:74 original size:21 final size:23

Alignment explanation


    Indices: 43--101  Score: 109
    Period size: 23  Copynumber: 2.6  Consensus size: 23

         33 ATATTTCTCT

                                   
         43 CTTTCTCTCTCTAAAAATCTTCC
          1 CTTTCTCTCTCTAAAAATCTTCC

                                   
         66 CTTTCTCTCTCTAAAAATCTTCC
          1 CTTTCTCTCTCTAAAAATCTTCC

            *            
         89 TTTTCTCTCTCTA
          1 CTTTCTCTCTCTA

        102 GAATCGCTTT


Statistics
Matches: 35,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  23   35  1.00

ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47


Consensus pattern (23 bp):   
CTTTCTCTCTCTAAAAATCTTCC

Found at i:2536 original size:64 final size:60

Alignment explanation


    Indices: 2436--2607  Score: 245
    Period size: 64  Copynumber: 2.8  Consensus size: 60

       2426 GTAGTCTTAA

                                                                          
       2436 TTTTGTTGCAATTTTGTTTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTCTAAG
          1 TTTTGTTGCAATTTTG-TTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTC-AAG

                                                              *      *  *  
       2498 TATTTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTTTATTATGTCCAG
          1 ---TTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTCAAG

                                             *    *        
       2561 TTTTGTTGCAATTTTGTTTTTGAACTTGTATGTCTACCTTGCCATTC
          1 TTTTGTTGCAATTTTGTTTTTGAAC-TGTATGTTTACCCTGCCATTC

       2608 ATTTTCTTAT


Statistics
Matches: 101,  Mismatches: 5, Indels: 6
        0.90            0.04        0.05

Matches are distributed among these distances:
  60   25  0.25
  61   19  0.19
  63    2  0.02
  64   39  0.39
  65   16  0.16

ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52


Consensus pattern (60 bp):   
TTTTGTTGCAATTTTGTTTTTGAACTGTATGTTTACCCTGCCATTCTCTATTATCTCAAG
Done.