Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00102.N4

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, 409

Length: 682
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.21


Found at i:434 original size:45 final size:45

Alignment explanation


    Indices: 383--528  Score: 121
    Period size: 45  Copynumber: 3.0  Consensus size: 45

        373 TGGAAGTGGG

                                                  *      
        383 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCTAGTTAT
          1 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTAT

                                            * * *     *  *     ***
        428 AGGAAATCGAGTTATGATAGATCAGATGAAAGAGAAGAAGGATATGGAGGTGGG
          1 AGGAAATCG-G--ATGAT-GA--AGATG-AAGGGTATAA-GAAATCGA-GTTAT

                                               *         
        482 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAGTCGAGTTAT
          1 AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTAT

              
        527 AG
          1 AG

        529 AAGAAATGAT


Statistics
Matches: 74,  Mismatches: 18, Indels: 18
        0.67            0.16        0.16

Matches are distributed among these distances:
  45   13  0.18
  46    6  0.08
  47    7  0.09
  48   10  0.14
  49    2  0.03
  50    2  0.03
  51   10  0.14
  52    7  0.09
  53    6  0.08
  54   11  0.15

ACGTcount: A:0.41, C:0.04, G:0.34, T:0.21


Consensus pattern (45 bp):   
AGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTAT

Found at i:552 original size:99 final size:99

Alignment explanation


    Indices: 372--555  Score: 266
    Period size: 99  Copynumber: 1.9  Consensus size: 99

        362 AAGCAAAGCC

                                                             *               
        372 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCTAGTTATAGGAAATCG
          1 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTATAGGAAATCG

               * **                           
        437 AGTTATGATAGATCAGATGAAAGAGAAGAAGGAT
         66 AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT

                 *                                        *                  
        471 ATGGAGGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAGTCGAGTTATAGAAGAAAT
          1 ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTATAG--GAAAT

                                   
        536 -GA-TGACAAT-GATTCAGATGA
         64 CGAGTGACAATAGA-TCAGATGA

        556 TGAAAGGAGG


Statistics
Matches: 76,  Mismatches: 6, Indels: 6
        0.86            0.07        0.07

Matches are distributed among these distances:
  98    2  0.03
  99   67  0.88
 100    2  0.03
 101    5  0.07

ACGTcount: A:0.41, C:0.04, G:0.33, T:0.21


Consensus pattern (99 bp):   
ATGGAAGTGGGAGGAAATCGGATGATGAAGATGAAGGGTATAAGAAATCGAGTTATAGGAAATCG
AGTGACAATAGATCAGATGAAAGAGAAGAAGGAT
Done.