Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: MAG.C2.12_contig_73

Parameters: 2 5 7 80 10 50 2000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 2000

Length: 9909
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23


Found at i:6982 original size:24 final size:24

Alignment explanation


    Indices: 6950--6996  Score: 80
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       6940 GCCACTACGC

                *                   
       6950 CAAAGGCAGAATCAGCCGTTGCAT
          1 CAAAAGCAGAATCAGCCGTTGCAT

                          *        
       6974 CAAAAGCAGAATCATCCGTTGCA
          1 CAAAAGCAGAATCAGCCGTTGCA

       6997 CCTAAGAGAG


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  24   21  1.00

ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17


Consensus pattern (24 bp):   
CAAAAGCAGAATCAGCCGTTGCAT

Found at i:7131 original size:24 final size:24

Alignment explanation


    Indices: 7093--7163  Score: 86
    Period size: 24  Copynumber: 3.0  Consensus size: 24

       7083 AGCCGCTCTA

                                    
       7093 CCGACAGCAGCATCAGTTACTACG
          1 CCGACAGCAGCATCAGTTACTACG

               *   *  *     ** * ** 
       7117 CCGTCAGTAGGATCAGAAAATCTG
          1 CCGACAGCAGCATCAGTTACTACG

                                   
       7141 CCGACAGCAGCATCAGTTACTAC
          1 CCGACAGCAGCATCAGTTACTAC

       7164 ACCATCGGTT


Statistics
Matches: 31,  Mismatches: 16, Indels: 0
        0.66            0.34        0.00

Matches are distributed among these distances:
  24   31  1.00

ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18


Consensus pattern (24 bp):   
CCGACAGCAGCATCAGTTACTACG

Found at i:7132 original size:48 final size:48

Alignment explanation


    Indices: 7088--7303  Score: 250
    Period size: 48  Copynumber: 4.5  Consensus size: 48

       7078 GAATCAGCCG

                                 **     *  *                
       7088 CTCTACCGACAGCAGCATCAGTTACTACGCCGTCAGTAGGATCAGAAA
          1 CTCTACCGACAGCAGCATCAGCCACTACACCATCAGTAGGATCAGAAA

            *   *                **           *  *          
       7136 ATCTGCCGACAGCAGCATCAGTTACTACACCATCGGTTGGATCAGAAA
          1 CTCTACCGACAGCAGCATCAGCCACTACACCATCAGTAGGATCAGAAA

                     **  * *        *                       
       7184 CTCTACCGATGGCCGAATCAGCCATTACACCATCAGTAGGATCAGAAA
          1 CTCTACCGACAGCAGCATCAGCCACTACACCATCAGTAGGATCAGAAA

               **     *    *                  * *        *  
       7232 CTCCGCCGACGGCAGGATCAGCCACTACACCATCTGAAGGATCAGGAA
          1 CTCTACCGACAGCAGCATCAGCCACTACACCATCAGTAGGATCAGAAA

                     **  * *        
       7280 CTCTACCGATGGCCGGATCAGCCA
          1 CTCTACCGACAGCAGCATCAGCCA

       7304 TGACCCCAAC


Statistics
Matches: 138,  Mismatches: 30, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  48  138  1.00

ACGTcount: A:0.30, C:0.31, G:0.22, T:0.18


Consensus pattern (48 bp):   
CTCTACCGACAGCAGCATCAGCCACTACACCATCAGTAGGATCAGAAA

Found at i:7156 original size:96 final size:96

Alignment explanation


    Indices: 7056--7303  Score: 216
    Period size: 96  Copynumber: 2.6  Consensus size: 96

       7046 AAGCGGTAAA

                   ** *  *   *           ***               *     **     *  * 
       7056 ATCAGCCCGTGAATCAAGAATTGAATCAGCCGCTCTACCGACAGCAGCATCAGTTACTACGCCGT
          1 ATCAGCCACTAAACCAACAATTGAATCAGAAACTCTACCGACAGCAGAATCAGCCACTACACCAT

                              *            
       7121 CAGTAGGATCAGAAAATCTGCCGACAGCAGC
         66 CAGTAGGATCAGAAAATCCGCCGACAGCAGC

                 **    *    * **   *                 **  *          *        
       7152 ATCAGTTACTACACCATCGGTTGGATCAGAAACTCTACCGATGGCCGAATCAGCCATTACACCAT
          1 ATCAGCCACTAAACCAACAATTGAATCAGAAACTCTACCGACAGCAGAATCAGCCACTACACCAT

                           *         *    *
       7217 CAGTAGGATCAGAAACTCCGCCGACGGCAGG
         66 CAGTAGGATCAGAAAATCCGCCGACAGCAGC

                       *    * **** *     *           **  * *        
       7248 ATCAGCCACTACACCATCTGAAGGATCAGGAACTCTACCGATGGCCGGATCAGCCA
          1 ATCAGCCACTAAACCAACAATTGAATCAGAAACTCTACCGACAGCAGAATCAGCCA

       7304 TGACCCCAAC


Statistics
Matches: 117,  Mismatches: 35, Indels: 0
        0.77            0.23        0.00

Matches are distributed among these distances:
  96  117  1.00

ACGTcount: A:0.31, C:0.30, G:0.22, T:0.18


Consensus pattern (96 bp):   
ATCAGCCACTAAACCAACAATTGAATCAGAAACTCTACCGACAGCAGAATCAGCCACTACACCAT
CAGTAGGATCAGAAAATCCGCCGACAGCAGC

Found at i:7179 original size:24 final size:24

Alignment explanation


    Indices: 7147--7300  Score: 94
    Period size: 24  Copynumber: 6.4  Consensus size: 24

       7137 TCTGCCGACA

                *     **            
       7147 GCAGCATCAGTTACTACACCATCG
          1 GCAGGATCAGAAACTACACCATCG

             **            **        
       7171 GTTGGATCAGAAACTCTACCGAT-G
          1 GCAGGATCAGAAACTACACC-ATCG

              * *     ** *         *
       7195 GCCGAATCAGCCATTACACCATCA
          1 GCAGGATCAGAAACTACACCATCG

             *             * *  **  
       7219 GTAGGATCAGAAACTCCGCCGACG
          1 GCAGGATCAGAAACTACACCATCG

                      **           *
       7243 GCAGGATCAGCCACTACACCATCT
          1 GCAGGATCAGAAACTACACCATCG

             *        *    **        
       7267 GAAGGATCAGGAACTCTACCGAT-G
          1 GCAGGATCAGAAACTACACC-ATCG

              *       
       7291 GCCGGATCAG
          1 GCAGGATCAG

       7301 CCATGACCCC


Statistics
Matches: 84,  Mismatches: 43, Indels: 6
        0.63            0.32        0.05

Matches are distributed among these distances:
  23    2  0.02
  24   78  0.93
  25    4  0.05

ACGTcount: A:0.30, C:0.30, G:0.23, T:0.18


Consensus pattern (24 bp):   
GCAGGATCAGAAACTACACCATCG

Found at i:7304 original size:96 final size:96

Alignment explanation


    Indices: 7088--7311  Score: 294
    Period size: 96  Copynumber: 2.3  Consensus size: 96

       7078 GAATCAGCCG

                     **  * *     ** *   *  *                   *             
       7088 CTCTACCGACAGCAGCATCAGTTACTACGCCGTCAGTAGGATCAGAAAATCTGCCGACAGCAGCA
          1 CTCTACCGATGGCCGAATCAGCCATTACACCATCAGTAGGATCAGAAAATCCGCCGACAGCAGCA

                **             **          
       7153 TCAGTTACTACACCATCGGTTGGATCAGAAA
         66 TCAGCCACTACACCATCGGAAGGATCAGAAA

                                                            *         *    * 
       7184 CTCTACCGATGGCCGAATCAGCCATTACACCATCAGTAGGATCAGAAACTCCGCCGACGGCAGGA
          1 CTCTACCGATGGCCGAATCAGCCATTACACCATCAGTAGGATCAGAAAATCCGCCGACAGCAGCA

                             *          *  
       7249 TCAGCCACTACACCATCTGAAGGATCAGGAA
         66 TCAGCCACTACACCATCGGAAGGATCAGAAA

                           *         *  *   
       7280 CTCTACCGATGGCCGGATCAGCCATGACCCCA
          1 CTCTACCGATGGCCGAATCAGCCATTACACCA

       7312 ACACATTAAC


Statistics
Matches: 106,  Mismatches: 22, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  96  106  1.00

ACGTcount: A:0.30, C:0.31, G:0.21, T:0.17


Consensus pattern (96 bp):   
CTCTACCGATGGCCGAATCAGCCATTACACCATCAGTAGGATCAGAAAATCCGCCGACAGCAGCA
TCAGCCACTACACCATCGGAAGGATCAGAAA
Done.