Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2534

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, 549

Length: 915
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27


Found at i:395 original size:58 final size:57

Alignment explanation


    Indices: 321--438  Score: 193
    Period size: 58  Copynumber: 2.1  Consensus size: 57

        311 TTACCCTCGG

                                                              *    *  
        321 CTTTGGTTCGAACCGGAGTCGAGTTGTGGGT-TTTCCCACACGGAGTCAAGAGATGCC
          1 CTTTGGTTCGAACCGGAGTCGAGTTGT-GGTATTTCCCACACGGAGTCAACAGATACC

                                                                      
        378 CTTTAGGTTCGAACCGGAGTCGAGTTGTGGTATTTCCCACACGGAGTCAACAGATACC
          1 CTTT-GGTTCGAACCGGAGTCGAGTTGTGGTATTTCCCACACGGAGTCAACAGATACC

               
        436 CTT
          1 CTT

        439 ACTTGCGCGG


Statistics
Matches: 57,  Mismatches: 2, Indels: 3
        0.92            0.03        0.05

Matches are distributed among these distances:
  57    7  0.12
  58   50  0.88

ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27


Consensus pattern (57 bp):   
CTTTGGTTCGAACCGGAGTCGAGTTGTGGTATTTCCCACACGGAGTCAACAGATACC

Found at i:510 original size:147 final size:146

Alignment explanation


    Indices: 226--515  Score: 393
    Period size: 147  Copynumber: 2.0  Consensus size: 146

        216 AAACTAAGGC

                                                                   *  * *    
        226 ATGCCCTTTAGGTTCGAACCGGAGTCGAGTTGTGGCATGTCCCACACGGAGTCAAGAGGTGCCCT
          1 ATGCCCTTTAGGTTCGAACCGGAGTCGAGTTGTGGCATGTCCCACACGGAGTCAACAGATACCCT

             *                               *  *                *  **  *    
        291 TGCGCGCGCGGAGTAATAAGTTACCCTCGGCTTTGGTTCGAACCGGAGTCGAGTTGTGGGTTTTC
         66 TACGCGCGCGGAGTAATAAGTTACCCTCGGCTTAGGCTCGAACCGGAGTCGAGATGCAGGCTTT-

                             
        356 CCACACGGAGTCAAGAG
        130 CCACACGGAGTCAAGAG

                                               *  *                          
        373 ATGCCCTTTAGGTTCGAACCGGAGTCGAGTTGTGGTATTTCCCACACGGAGTCAACAGATACCCT
          1 ATGCCCTTTAGGTTCGAACCGGAGTCGAGTTGTGGCATGTCCCACACGGAGTCAACAGATACCCT

               **                    *                                  *    
        438 TACTTGCGCGGAGTAATAAGTTACCTTCGGCTTAGGCTCGAACCGGAGTCAAGAGATGCATGCTT
         66 TACGCGCGCGGAGTAATAAGTTACCCTCGGCTTAGGCTCGAACCGGAGTC--GAGATGCAGGCTT

               *          
        503 T-CGCACGGAGTCA
        129 TCCACACGGAGTCA

        516 CAAGTTACCG


Statistics
Matches: 124,  Mismatches: 17, Indels: 4
        0.86            0.12        0.03

Matches are distributed among these distances:
 147  115  0.93
 149    9  0.07

ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24


Consensus pattern (146 bp):   
ATGCCCTTTAGGTTCGAACCGGAGTCGAGTTGTGGCATGTCCCACACGGAGTCAACAGATACCCT
TACGCGCGCGGAGTAATAAGTTACCCTCGGCTTAGGCTCGAACCGGAGTCGAGATGCAGGCTTTC
CACACGGAGTCAAGAG
Done.