Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: CotAD_69105

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, 200

Length: 270
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32


Found at i:98 original size:39 final size:39

Alignment explanation


    Indices: 35--252  Score: 321
    Period size: 39  Copynumber: 5.5  Consensus size: 39

         25 GTGTTCAAAA

                                                   
         35 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
          1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG

                          *    *                  *
         74 TTATATCCGGGCTAGGTCCTGAAGGCATTCGTGCTGGTA
          1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG

                  *                                
        113 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
          1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG

                                             *     
        152 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
          1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG

                                  *    *           *
        191 TTATATCCGGGCTAAAGTCCCGCAGGCTTTC-TGCTGGTA
          1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG

                  *                
        230 TTATATTCGGGCTTAAAGTCCCG
          1 TTATATCCGGGC-T-AAGTCCCG

        253 CATGCTTTGT


Statistics
Matches: 163,  Mismatches: 14, Indels: 3
        0.91            0.08        0.02

Matches are distributed among these distances:
  39  138  0.85
  40   25  0.15

ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31


Consensus pattern (39 bp):   
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG

Found at i:241 original size:117 final size:119

Alignment explanation


    Indices: 35--252  Score: 361
    Period size: 117  Copynumber: 1.8  Consensus size: 119

         25 GTGTTCAAAA

                                                                 *    *      
         35 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCTGAAGGC
          1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC

                                                                  
        100 ATTCGTGCTGGTATTATATTCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGTG
         66 ATTCGTGCTGGTATTATATTCGGGCTTAAAGTCCCGAAGGCATTCGTGCTGGTG

                                             *                           *   
        152 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCCGGGCTAAAGTCCCGCAGG
          1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAGG

             *                                   
        217 CTTTC-TGCTGGTATTATATTCGGGCTTAAAGTCCCG
         65 CATTCGTGCTGGTATTATATTCGGGCTTAAAGTCCCG

        253 CATGCTTTGT


Statistics
Matches: 93,  Mismatches: 5, Indels: 4
        0.91            0.05        0.04

Matches are distributed among these distances:
 117   71  0.76
 118   14  0.15
 119    8  0.09

ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31


Consensus pattern (119 bp):   
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGC
ATTCGTGCTGGTATTATATTCGGGCTTAAAGTCCCGAAGGCATTCGTGCTGGTG
Done.