Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Gohir.A06G108800.1.v1.1

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: 2073
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26


Found at i:1062 original size:51 final size:51

Alignment explanation


    Indices: 986--1089  Score: 208
    Period size: 51  Copynumber: 2.0  Consensus size: 51

        976 GGTGTTGATG

                                                               
        986 ATGGAGTTGTTTCAGCAGAGCCTGTGGCTTATATTACCAACTATGATTCCC
          1 ATGGAGTTGTTTCAGCAGAGCCTGTGGCTTATATTACCAACTATGATTCCC

                                                               
       1037 ATGGAGTTGTTTCAGCAGAGCCTGTGGCTTATATTACCAACTATGATTCCC
          1 ATGGAGTTGTTTCAGCAGAGCCTGTGGCTTATATTACCAACTATGATTCCC

              
       1088 AT
          1 AT

       1090 CCAGTACAAA


Statistics
Matches: 53,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  51   53  1.00

ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34


Consensus pattern (51 bp):   
ATGGAGTTGTTTCAGCAGAGCCTGTGGCTTATATTACCAACTATGATTCCC

Found at i:1197 original size:27 final size:27

Alignment explanation


    Indices: 1151--1227  Score: 82
    Period size: 27  Copynumber: 2.9  Consensus size: 27

       1141 AATTTAAGAT

                       *   *       * * 
       1151 CAAGCCATGGTCATCGACAACCTTTGC
          1 CAAGCCATGGTGATCAACAACCTGTAC

             * *                *      
       1178 CGATCCATGGTGATCAACAATCTGTAC
          1 CAAGCCATGGTGATCAACAACCTGTAC

                     *             
       1205 CAAGCCATGATGATCAACAACCT
          1 CAAGCCATGGTGATCAACAACCT

       1228 ATGTCAAACC


Statistics
Matches: 39,  Mismatches: 11, Indels: 0
        0.78            0.22        0.00

Matches are distributed among these distances:
  27   39  1.00

ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22


Consensus pattern (27 bp):   
CAAGCCATGGTGATCAACAACCTGTAC

Found at i:1239 original size:27 final size:27

Alignment explanation


    Indices: 1182--1239  Score: 62
    Period size: 27  Copynumber: 2.1  Consensus size: 27

       1172 CTTTGCCGAT

                 *          *  *      *
       1182 CCATGGTGATCAACAATCTGTACCAAG
          1 CCATGATGATCAACAACCTATACCAAA

                                 **    
       1209 CCATGATGATCAACAACCTATGTCAAA
          1 CCATGATGATCAACAACCTATACCAAA

                
       1236 CCAT
          1 CCAT

       1240 ATTACCAACT


Statistics
Matches: 25,  Mismatches: 6, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  27   25  1.00

ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22


Consensus pattern (27 bp):   
CCATGATGATCAACAACCTATACCAAA

Found at i:1352 original size:171 final size:171

Alignment explanation


    Indices: 1067--1409  Score: 596
    Period size: 171  Copynumber: 2.0  Consensus size: 171

       1057 CCTGTGGCTT

                             *                                               
       1067 ATATTACCAACTATGATTCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
          1 ATATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG

                                              *                              
       1132 AAGAGACCTAATTTAAGATCAAGCCATGGTCATCGACAACCTTTGCCGATCCATGGTGATCAACA
         66 AAGAGACCTAATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACA

                                                     
       1197 ATCTGTACCAAGCCATGATGATCAACAACCTATGTCAAACC
        131 ATCTGTACCAAGCCATGATGATCAACAACCTATGTCAAACC

                                                                  *          
       1238 ATATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACTACCTAGGAGG
          1 ATATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG

                     **                    *        *         *              
       1303 AAGAGACCTCGTTTAAGATCAAGCCATGGTCGTCAACAACTTTTGCCGATTCATGGTGATCAACA
         66 AAGAGACCTAATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACA

                    *        *                       
       1368 ATCTGTACTAAGCCATGGTGATCAACAACCTATGTCAAACC
        131 ATCTGTACCAAGCCATGATGATCAACAACCTATGTCAAACC

             
       1409 A
          1 A

       1410 CGGTGATCAA


Statistics
Matches: 162,  Mismatches: 10, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
 171  162  1.00

ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22


Consensus pattern (171 bp):   
ATATTACCAACTATGATCCCCATCCAGTACAAATCAATGAGCGAGTGGCAAAACAACCTAGGAGG
AAGAGACCTAATTTAAGATCAAGCCATGGTCATCAACAACCTTTGCCGATCCATGGTGATCAACA
ATCTGTACCAAGCCATGATGATCAACAACCTATGTCAAACC

Found at i:1384 original size:27 final size:26

Alignment explanation


    Indices: 1354--1449  Score: 122
    Period size: 27  Copynumber: 3.6  Consensus size: 26

       1344 TTTGCCGATT

                                       
       1354 CATGGTGATCAACAATCTGTACTAAGC
          1 CATGGTGATCAACAATCTGTAC-AAGC

                              *       * 
       1381 CATGGTGATCAACAACCTATGT-CAAAC
          1 CATGGTGATCAACAA--TCTGTACAAGC

              *                        
       1408 CACGGTGATCAACAATCTGTACCAAGC
          1 CATGGTGATCAACAATCTGTA-CAAGC

                           
       1435 CATGGTGATCAACAA
          1 CATGGTGATCAACAA

       1450 CCTGGACCAC


Statistics
Matches: 59,  Mismatches: 6, Indels: 8
        0.81            0.08        0.11

Matches are distributed among these distances:
  25    4  0.07
  27   50  0.85
  28    1  0.02
  29    4  0.07

ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22


Consensus pattern (26 bp):   
CATGGTGATCAACAATCTGTACAAGC

Done.