Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g00655.N2

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: 6186
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32


Found at i:2047 original size:46 final size:46

Alignment explanation


    Indices: 1995--2221  Score: 305
    Period size: 46  Copynumber: 5.0  Consensus size: 46

       1985 AGTGTGCTCT

                                                          
       1995 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
          1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC

                        *                                *
       2041 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGC-AG
          1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC

              *  *                                      * 
       2086 CTAATGTGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
          1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC

            *   *        **                               
       2132 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
          1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC

            *   *         *          *         *         
       2178 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCA
          1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA

       2222 TCATGTCAAA


Statistics
Matches: 161,  Mismatches: 18, Indels: 4
        0.88            0.10        0.02

Matches are distributed among these distances:
  45   42  0.26
  46  119  0.74

ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22


Consensus pattern (46 bp):   
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC

Found at i:2156 original size:91 final size:93

Alignment explanation


    Indices: 2001--2221  Score: 308
    Period size: 91  Copynumber: 2.4  Consensus size: 93

       1991 CTCTCTGATA

                                                        *         *          
       2001 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATATGTAAGACCATG
          1 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATATATAAGACCATG

                               *         
       2066 GTTGAAAGATACCATGGCAGC-T-A-ATG
         66 GTTGAAAGATACCATGGCAACATGACA-G

                                                  * *                        
       2092 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGA-ATAAGACCAT
          1 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAT-ATATAAGACCAT

                                         
       2156 GGTTGAAAGATACCATGGCAACATGACAG
         65 GGTTGAAAGATACCATGGCAACATGACAG

             *     *          *         *         
       2185 -AAAATGAGTAAGACCATAGTTGAAAGACACCATGGCA
          1 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA

       2222 TCATGTCAAA


Statistics
Matches: 117,  Mismatches: 9, Indels: 7
        0.88            0.07        0.05

Matches are distributed among these distances:
  91   79  0.68
  92   35  0.30
  93    2  0.02
  94    1  0.01

ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21


Consensus pattern (93 bp):   
TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATATATAAGACCATG
GTTGAAAGATACCATGGCAACATGACAG

Done.