Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00796.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, 925

Length: 1543
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27


Found at i:457 original size:27 final size:27

Alignment explanation


    Indices: 426--481  Score: 76
    Period size: 27  Copynumber: 2.1  Consensus size: 27

        416 CCCTACTACC

                       *               
        426 CCAACATCACCGGACACAAATCCGACT
          1 CCAACATCACCAGACACAAATCCGACT

                   *         *      *  
        453 CCAACATTACCAGACACTAATCCGGCT
          1 CCAACATCACCAGACACAAATCCGACT

              
        480 CC
          1 CC

        482 CACCGGCCCT


Statistics
Matches: 25,  Mismatches: 4, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  27   25  1.00

ACGTcount: A:0.34, C:0.41, G:0.11, T:0.14


Consensus pattern (27 bp):   
CCAACATCACCAGACACAAATCCGACT

Found at i:505 original size:24 final size:24

Alignment explanation


    Indices: 478--529  Score: 77
    Period size: 24  Copynumber: 2.2  Consensus size: 24

        468 ACTAATCCGG

                                    
        478 CTCCCACCGGCCCTACCACGACTC
          1 CTCCCACCGGCCCTACCACGACTC

                *  *          *     
        502 CTCCGACTGGCCCTACCATGACTC
          1 CTCCCACCGGCCCTACCACGACTC

                
        526 CTCC
          1 CTCC

        530 GACTGGGACA


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  24   25  1.00

ACGTcount: A:0.15, C:0.54, G:0.13, T:0.17


Consensus pattern (24 bp):   
CTCCCACCGGCCCTACCACGACTC

Found at i:530 original size:24 final size:24

Alignment explanation


    Indices: 486--601  Score: 97
    Period size: 24  Copynumber: 4.8  Consensus size: 24

        476 GGCTCCCACC

                                    
        486 GGCCCTACCACGACTCCTCCGACT
          1 GGCCCTACCACGACTCCTCCGACT

                      *             
        510 GGCCCTACCATGACTCCTCCGACT
          1 GGCCCTACCACGACTCCTCCGACT

              ** *     *        *   
        534 GGGACAACCACAACTCCTCCAACT
          1 GGCCCTACCACGACTCCTCCGACT

              ** *     *        *   
        558 GGGACAACCACAACTCCTCCAACT
          1 GGCCCTACCACGACTCCTCCGACT

              ** *     *        
        582 GGGACAACCACAACTCCTCC
          1 GGCCCTACCACGACTCCTCC

        602 AACAGGGACA


Statistics
Matches: 85,  Mismatches: 7, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  24   85  1.00

ACGTcount: A:0.26, C:0.45, G:0.15, T:0.15


Consensus pattern (24 bp):   
GGCCCTACCACGACTCCTCCGACT

Found at i:602 original size:24 final size:24

Alignment explanation


    Indices: 522--640  Score: 211
    Period size: 24  Copynumber: 5.0  Consensus size: 24

        512 CCCTACCATG

                    *               
        522 ACTCCTCCGACTGGGACAACCACA
          1 ACTCCTCCAACTGGGACAACCACA

                                    
        546 ACTCCTCCAACTGGGACAACCACA
          1 ACTCCTCCAACTGGGACAACCACA

                                    
        570 ACTCCTCCAACTGGGACAACCACA
          1 ACTCCTCCAACTGGGACAACCACA

                       *            
        594 ACTCCTCCAACAGGGACAACCACA
          1 ACTCCTCCAACTGGGACAACCACA

                       *           
        618 ACTCCTCCAACAGGGACAACCAC
          1 ACTCCTCCAACTGGGACAACCAC

        641 GAGTCCAGGA


Statistics
Matches: 93,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  24   93  1.00

ACGTcount: A:0.34, C:0.42, G:0.13, T:0.11


Consensus pattern (24 bp):   
ACTCCTCCAACTGGGACAACCACA

Done.