Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g02229.P1

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: 11380
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29


Found at i:1450 original size:25 final size:26

Alignment explanation


    Indices: 1409--1460  Score: 63
    Period size: 25  Copynumber: 2.0  Consensus size: 26

       1399 TTTACAGTTT

                                      
       1409 TACCCCTAGGTGAAAATT-ACCGAAA
          1 TACCCCTAGGTGAAAATTGACCGAAA

                         *         *   
       1434 TACCCCTAGG-GTTAAATTGACCTAAA
          1 TACCCCTAGGTG-AAAATTGACCGAAA

             
       1460 T
          1 T

       1461 GCATGTTTGA


Statistics
Matches: 23,  Mismatches: 2, Indels: 3
        0.82            0.07        0.11

Matches are distributed among these distances:
  24    1  0.04
  25   15  0.65
  26    7  0.30

ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25


Consensus pattern (26 bp):   
TACCCCTAGGTGAAAATTGACCGAAA

Found at i:1949 original size:134 final size:137

Alignment explanation


    Indices: 1708--1991  Score: 520
    Period size: 134  Copynumber: 2.1  Consensus size: 137

       1698 GAGTAGTCTC

                                                                             
       1708 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
       1773 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCT-TGGCCCAGTA-C
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1836 ACTGTTA
        131 ACTGTTA

                                    *                                        
       1843 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
       1907 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1972 ACTGTTA
        131 ACTGTTA

              **         
       1979 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1992 AGGCCCAATA


Statistics
Matches: 144,  Mismatches: 3, Indels: 3
        0.96            0.02        0.02

Matches are distributed among these distances:
 134   95  0.66
 135   30  0.21
 136   19  0.13

ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32


Consensus pattern (137 bp):   
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA

Found at i:5755 original size:26 final size:26

Alignment explanation


    Indices: 5719--5828  Score: 184
    Period size: 26  Copynumber: 4.2  Consensus size: 26

       5709 TGATACAAAT

                                      
       5719 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                                      
       5745 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                   *               *  
       5771 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                   *               *  
       5797 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTCCA

                  
       5823 TGATAA
          1 TGATAA

       5829 GAATTTCATG


Statistics
Matches: 82,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  26   82  1.00

ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36


Consensus pattern (26 bp):   
TGATAATAGGTTAGGTAAATGTTCCA

Found at i:7485 original size:27 final size:27

Alignment explanation


    Indices: 7444--7559  Score: 178
    Period size: 27  Copynumber: 4.3  Consensus size: 27

       7434 GAGGAAGCGT

                      *                
       7444 TCTGGTGGCTATGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                                       
       7471 TCTGGTGGCTCTGCCACAAATATCTGA
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                              *       *
       7498 TCTGGTGGCTCTGCCACATATATCTGT
          1 TCTGGTGGCTCTGCCACAAATATCTGA

                             * *        
       7525 TCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACAAATATCTG-A

                   
       7553 TCTGGTG
          1 TCTGGTG

       7560 ACCTGTCACA


Statistics
Matches: 81,  Mismatches: 7, Indels: 1
        0.91            0.08        0.01

Matches are distributed among these distances:
  27   74  0.91
  28    7  0.09

ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34


Consensus pattern (27 bp):   
TCTGGTGGCTCTGCCACAAATATCTGA

Found at i:7529 original size:54 final size:55

Alignment explanation


    Indices: 7444--7582  Score: 194
    Period size: 54  Copynumber: 2.6  Consensus size: 55

       7434 GAGGAAGCGT

                      *       *       *                            
       7444 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA

                                                        * *        
       7498 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA

                   *     *                  
       7553 TCTGGTGAC-CTGTCACAT-TATCTGTTCTGG
          1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG

       7583 CAGCCATGCT


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

Matches are distributed among these distances:
  53   12  0.16
  54   56  0.73
  55    9  0.12

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


Consensus pattern (55 bp):   
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Done.