Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g01720.C1

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, 925

Length: 1543
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42


Found at i:813 original size:129 final size:129

Alignment explanation


    Indices: 631--901  Score: 357
    Period size: 136  Copynumber: 2.1  Consensus size: 129

        621 TTCTTATTGA

                   *           *            *                                
        631 TTGATTTAGTTGTTCTTAGTTCGTTAAACTACGGTCTTCACTTTTGTGTTCTTTCAGTTC-AATT
          1 TTGATTTTGTTGTTCTTAGCTCGTTAAACTACAGTCTTCACTTTTGTGTTCTTTCAGTTCAAATT

                         *                                                  
        695 AAAATGGGTTTGTTTGTTTTTA-CTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG
         66 AAAATGGGTTTGTCTGTTTTTATCTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG

                                   *      *         **                       
        758 TTGATTTTGTTGTTCTTAGCTCTTTGTAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGTTCAAA
          1 TTGATTTTGTTGTTCTTAGCTC-GT-TAAACTACAGTCTTCACTTTTGTGTTCTTTCAGTTCAAA

              *                                 *      *                   * 
        823 TTTAAATGGGTTTGTCTGTTTTTACTTCTTCTTTTTTTGTACTGTTTGATTCTTATTGATTGCTC
         64 TTAAAATGGGTTTGTCTGTTTTTA-----TCTTTTTCTGTACTATTTGATTCTTATTGATTGCCC

                  
        888 CTTTTG
        124 CTTTTG

                    
        894 TTGATTTT
          1 TTGATTTT

        902 ACTATTTTTA


Statistics
Matches: 123,  Mismatches: 12, Indels: 9
        0.85            0.08        0.06

Matches are distributed among these distances:
 127   20  0.16
 128    1  0.01
 129   32  0.26
 130   24  0.20
 136   46  0.37

ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56


Consensus pattern (129 bp):   
TTGATTTTGTTGTTCTTAGCTCGTTAAACTACAGTCTTCACTTTTGTGTTCTTTCAGTTCAAATT
AAAATGGGTTTGTCTGTTTTTATCTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG

Found at i:913 original size:136 final size:129

Alignment explanation


    Indices: 671--965  Score: 349
    Period size: 136  Copynumber: 2.2  Consensus size: 129

        661 ACGGTCTTCA

                                                 *                           
        671 CTTTTGTGTTCTTTCAGTTCAATTAAAATGGGTTTGTTTGTTTTTACTTTTTCTGTACTATTTGA
          1 CTTTTGTGTTCTTTCAGTTCAATTAAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGA

                                          ** *                              
        736 TTCTTATTGATTGCCCCTTTTGTTGATTTTGTTGTTCTTAGCTCTTTGTAAATTACAGTCTTTG
         66 TTCTTATTGATTGCCCCTTTTGTTGATTTTACTATTCTTAGCTCTTTGTAAATTACAGTCTTTG

                                     *                                 *     
        800 CTTTTGTGTTCTTTCAGTTCAAATTTAAATGGGTTTGTCTGTTTTTACTTCTTCTTTTTTTGTAC
          1 CTTTTGTGTTCTTTCAGTTC-AATTAAAATGGGTTTGTCTGTTTTTA------CTTTTTCTGTAC

             *                   *                     *      *  * *      *  
        865 TGTTTGATTCTTATTGATTGCTCCTTTTGTTGATTTTACTATTTTTAGCTATTGGCAAACTGCAC
         59 TATTTGATTCTTATTGATTGCCCCTTTTGTTGATTTTACTATTCTTAGCTCTTTGTAAA-T-TAC

              *      
        930 A-ACATTTG
        122 AGTC-TTTG

                              *         
        938 CTTTTTGTGTTCTTTCAGCTCAATTAAA
          1 C-TTTTGTGTTCTTTCAGTTCAATTAAA

        966 GACTAAATTT


Statistics
Matches: 139,  Mismatches: 16, Indels: 13
        0.83            0.10        0.08

Matches are distributed among these distances:
 129   20  0.14
 130   24  0.17
 136   61  0.44
 137    2  0.01
 138   14  0.10
 139   18  0.13

ACGTcount: A:0.17, C:0.14, G:0.15, T:0.54


Consensus pattern (129 bp):   
CTTTTGTGTTCTTTCAGTTCAATTAAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGA
TTCTTATTGATTGCCCCTTTTGTTGATTTTACTATTCTTAGCTCTTTGTAAATTACAGTCTTTG
Done.