Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01996.F5

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: 3462
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33


Found at i:1073 original size:406 final size:406

Alignment explanation


    Indices: 321--1128  Score: 1544
    Period size: 406  Copynumber: 2.0  Consensus size: 406

        311 CCTGATATGG

                                                                             
        321 TTTAGGCATCCATTGGAAACTTGAATTACAACCCTGAATCAACTTTAGCAATAGCAAAAGTCTAG
          1 TTTAGGCATCCATTGGAAACTTGAATTACAACCCTGAATCAACTTTAGCAATAGCAAAAGTCTAG

                                                                             
        386 CACCTGGATTGTTTGAAATGCTCATTAAAATGCCTTTTGAAAGAAAGAAAAGAATATGACGAGTC
         66 CACCTGGATTGTTTGAAATGCTCATTAAAATGCCTTTTGAAAGAAAGAAAAGAATATGACGAGTC

                          *                                        *         
        451 AAGATTTCTTAGGATTCTATGCTTAAAGTATATGCCTCAACCCCTAGAGAAGGCAGTTGGAACAA
        131 AAGATTTCTTAGGAATCTATGCTTAAAGTATATGCCTCAACCCCTAGAGAAGGCAATTGGAACAA

                                                                             
        516 AACTCAGCAATCAAGGTAAAAGATCTAACAAGATAATCAGTTTCAAAATTGATGGTAATAACTTG
        196 AACTCAGCAATCAAGGTAAAAGATCTAACAAGATAATCAGTTTCAAAATTGATGGTAATAACTTG

                                                                             
        581 AGTTTGGTAAGATTCCTGCCTAAAAAGTATTACTATTCTTATCCTAAACCATATATTAAAATTCT
        261 AGTTTGGTAAGATTCCTGCCTAAAAAGTATTACTATTCTTATCCTAAACCATATATTAAAATTCT

                                                    *                        
        646 CCCAAGGATTGTTATGGCAGATGGTTACTGATGCAGGTATGTTGTTCTTGAAAAATCAGGGTTTT
        326 CCCAAGGATTGTTATGGCAGATGGTTACTGATGCAGGTATATTGTTCTTGAAAAATCAGGGTTTT

                            
        711 CGGCAACTGTATCAAC
        391 CGGCAACTGTATCAAC

                                                                             
        727 TTTAGGCATCCATTGGAAACTTGAATTACAACCCTGAATCAACTTTAGCAATAGCAAAAGTCTAG
          1 TTTAGGCATCCATTGGAAACTTGAATTACAACCCTGAATCAACTTTAGCAATAGCAAAAGTCTAG

              *                                                        *     
        792 CATCTGGATTGTTTGAAATGCTCATTAAAATGCCTTTTGAAAGAAAGAAAAGAATATGATGAGTC
         66 CACCTGGATTGTTTGAAATGCTCATTAAAATGCCTTTTGAAAGAAAGAAAAGAATATGACGAGTC

                                                                             
        857 AAGATTTCTTAGGAATCTATGCTTAAAGTATATGCCTCAACCCCTAGAGAAGGCAATTGGAACAA
        131 AAGATTTCTTAGGAATCTATGCTTAAAGTATATGCCTCAACCCCTAGAGAAGGCAATTGGAACAA

                    *                                                        
        922 AACTCAGCCATCAAGGTAAAAGATCTAACAAGATAATCAGTTTCAAAATTGATGGTAATAACTTG
        196 AACTCAGCAATCAAGGTAAAAGATCTAACAAGATAATCAGTTTCAAAATTGATGGTAATAACTTG

                                            *                                
        987 AGTTTGGTAAGATTCCTGCCTAAAAAGTATTATTATTCTTATCCTAAACCATATATTAAAATTCT
        261 AGTTTGGTAAGATTCCTGCCTAAAAAGTATTACTATTCTTATCCTAAACCATATATTAAAATTCT

                                                                        *    
       1052 CCCAAGGATTGTTATGGCAGATGGTTACTGATGCAGGTATATTGTTCTTGAAAAATCAGGTTTTT
        326 CCCAAGGATTGTTATGGCAGATGGTTACTGATGCAGGTATATTGTTCTTGAAAAATCAGGGTTTT

                        
       1117 CGGCAACTGTAT
        391 CGGCAACTGTAT

       1129 AAACATTGGT


Statistics
Matches: 394,  Mismatches: 8, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 406  394  1.00

ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31


Consensus pattern (406 bp):   
TTTAGGCATCCATTGGAAACTTGAATTACAACCCTGAATCAACTTTAGCAATAGCAAAAGTCTAG
CACCTGGATTGTTTGAAATGCTCATTAAAATGCCTTTTGAAAGAAAGAAAAGAATATGACGAGTC
AAGATTTCTTAGGAATCTATGCTTAAAGTATATGCCTCAACCCCTAGAGAAGGCAATTGGAACAA
AACTCAGCAATCAAGGTAAAAGATCTAACAAGATAATCAGTTTCAAAATTGATGGTAATAACTTG
AGTTTGGTAAGATTCCTGCCTAAAAAGTATTACTATTCTTATCCTAAACCATATATTAAAATTCT
CCCAAGGATTGTTATGGCAGATGGTTACTGATGCAGGTATATTGTTCTTGAAAAATCAGGGTTTT
CGGCAACTGTATCAAC
Done.