Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g02034.F6

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: 3509
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38


Found at i:1240 original size:20 final size:22

Alignment explanation


    Indices: 1196--1266  Score: 83
    Period size: 20  Copynumber: 3.3  Consensus size: 22

       1186 AATCTAGTGG

                                  
       1196 TTTATCCACATATTTCTGGCAA
          1 TTTATCCACATATTTCTGGCAA

                  *             * 
       1218 TTTATCTACA-ATTT-TGGCGA
          1 TTTATCCACATATTTCTGGCAA

                              *   *
       1238 TTTATCCACATATATTCTAGCAG
          1 TTTATCCACATAT-TTCTGGCAA

                  
       1261 TTTATC
          1 TTTATC

       1267 TGCAAATGTT


Statistics
Matches: 40,  Mismatches: 6, Indels: 5
        0.78            0.12        0.10

Matches are distributed among these distances:
  20   14  0.35
  21    6  0.15
  22   11  0.28
  23    9  0.22

ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44


Consensus pattern (22 bp):   
TTTATCCACATATTTCTGGCAA

Found at i:2721 original size:22 final size:22

Alignment explanation


    Indices: 2696--2756  Score: 104
    Period size: 22  Copynumber: 2.7  Consensus size: 22

       2686 AGCTTGTATA

                  *               
       2696 AGCTTATTGTTCAGCTCGTCAG
          1 AGCTTACTGTTCAGCTCGTCAG

                                  
       2718 AGCTTACTGTTCAGCTCGTCAG
          1 AGCTTACTGTTCAGCTCGTCAG

                             
       2740 AGCTTACTGTTTCAGCT
          1 AGCTTACTG-TTCAGCT

       2757 TAATAGAGCT


Statistics
Matches: 37,  Mismatches: 1, Indels: 1
        0.95            0.03        0.03

Matches are distributed among these distances:
  22   30  0.81
  23    7  0.19

ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36


Consensus pattern (22 bp):   
AGCTTACTGTTCAGCTCGTCAG

Found at i:2764 original size:23 final size:22

Alignment explanation


    Indices: 2696--2770  Score: 80
    Period size: 22  Copynumber: 3.4  Consensus size: 22

       2686 AGCTTGTATA

                  *         **    
       2696 AGCTTATTGTTCAGCTCGTCAG
          1 AGCTTACTGTTCAGCTAATCAG

                            **    
       2718 AGCTTACTGTTCAGCTCGTCAG
          1 AGCTTACTGTTCAGCTAATCAG

                                    
       2740 AGCTTACTGTTTCAGCTTAAT-AG
          1 AGCTTACTG-TTCAGC-TAATCAG

                    
       2763 AGCTTACT
          1 AGCTTACT

       2771 ATTTATCAGC


Statistics
Matches: 48,  Mismatches: 3, Indels: 3
        0.89            0.06        0.06

Matches are distributed among these distances:
  22   30  0.62
  23   16  0.33
  24    2  0.04

ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36


Consensus pattern (22 bp):   
AGCTTACTGTTCAGCTAATCAG
Done.