Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g03435.F1

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: 1832
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29


Found at i:1356 original size:63 final size:63

Alignment explanation


    Indices: 1179--1478  Score: 310
    Period size: 63  Copynumber: 4.9  Consensus size: 63

       1169 CAATCTCGGG

                                              * *     *      *            *
       1179 CCATACATTACAGTATAGCAG---CAGGACCTTCAGTGACTCATCAACAAGAGCAACCTCAGT
          1 CCATACATTACAGTATAGCAGCACCAGGACCTTCCGCGACTCCTCAACAGGAGCAACCTCAGA

                            * *   *            *                          *  
       1239 CCATACATTACAG---CGTAGCTCCAGGACCTTCCAC-AGCTCCTCAACCA-GAGCAACCTCTGA
          1 CCATACATTACAGTATAGCAGCACCAGGACCTTCCGCGA-CTCCTCAA-CAGGAGCAACCTCAGA

                                     *        *  *              *         *
       1299 CCATACATTACAGTATAGCAGCACCGGGACCTTCGGCAACTCCTCAACAGGAACAACCTCAGG
          1 CCATACATTACAGTATAGCAGCACCAGGACCTTCCGCGACTCCTCAACAGGAGCAACCTCAGA

                *         *        *                            *       ** 
       1362 CCATGCATTACAGTGTAGCAGCATCAGGACCTTCCGCGACTCCTCAACAGGACCAACCTCTTA
          1 CCATACATTACAGTATAGCAGCACCAGGACCTTCCGCGACTCCTCAACAGGAGCAACCTCAGA

                             *       *               *            
       1425 CCATACATTACAGTATAACAGCACCGGGACCTTCCGCGACTGCTCAACAGGAGC
          1 CCATACATTACAGTATAGCAGCACCAGGACCTTCCGCGACTCCTCAACAGGAGC

       1479 CAGCAATTCA


Statistics
Matches: 196,  Mismatches: 34, Indels: 17
        0.79            0.14        0.07

Matches are distributed among these distances:
  57    3  0.02
  59    1  0.01
  60   54  0.28
  61    2  0.01
  62    2  0.01
  63  133  0.68
  64    1  0.01

ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18


Consensus pattern (63 bp):   
CCATACATTACAGTATAGCAGCACCAGGACCTTCCGCGACTCCTCAACAGGAGCAACCTCAGA

Found at i:1431 original size:126 final size:123

Alignment explanation


    Indices: 1179--1476  Score: 372
    Period size: 126  Copynumber: 2.4  Consensus size: 123

       1169 CAATCTCGGG

                                                *     *      *  *         *  
       1179 CCATACATTACAGTATAGCAGCA---GGACCTTCAGTGACTCATCAACAAGAGCAACCTCAGTCC
          1 CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTCCTCAACAGGAACAACCTCAGGCC

                             *                             *          
       1241 ATACATTACAGCGTAGCTCCAGGACCTTCCACAGCTCCTCAACCAGAGCAACCTCTGA
         66 ATACATTACAGCGTAGCGCCAGGACCTTCCACAGCTCCTCAACCAGACCAACCTCTGA

                                              *  *                           
       1299 CCATACATTACAGTATAGCAGCACCGGGACCTTCGGCAACTCCTCAACAGGAACAACCTCAGGCC
          1 CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTCCTCAACAGGAACAACCTCAGGCC

              *        *                     *                           * 
       1364 ATGCATTACAGTGTAGCAGCATCAGGACCTTCCGC-GACTCCTCAA-CAGGACCAACCTCTTA
         66 ATACATTACAGCGTAGC-GC--CAGGACCTTCCACAG-CTCCTCAACCA-GACCAACCTCTGA

                             *                *      *          
       1425 CCATACATTACAGTATAACAGCACCGGGACCTTCCGCGACTGCTCAACAGGA
          1 CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTCCTCAACAGGA

       1477 GCCAGCAATT


Statistics
Matches: 153,  Mismatches: 17, Indels: 10
        0.85            0.09        0.06

Matches are distributed among these distances:
 120   23  0.15
 123   47  0.31
 124    1  0.01
 125    3  0.02
 126   79  0.52

ACGTcount: A:0.31, C:0.34, G:0.17, T:0.18


Consensus pattern (123 bp):   
CCATACATTACAGTATAGCAGCACCGGGACCTTCAGCGACTCCTCAACAGGAACAACCTCAGGCC
ATACATTACAGCGTAGCGCCAGGACCTTCCACAGCTCCTCAACCAGACCAACCTCTGA
Done.