Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g00871.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, 1000

Length: 3221
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27


Found at i:476 original size:90 final size:90

Alignment explanation


    Indices: 250--462  Score: 381
    Period size: 90  Copynumber: 2.4  Consensus size: 90

        240 GATCCAAAAA

                *                  *                        *        *       
        250 CAAATGAACAAGAAGTTGTACATACAATGGATGTGTGCAATGCTTCAACGGTTGAAGGTTGTCAT
          1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT

                 *                   
        315 AGAGATGCCATAGAAAATTCTCAAG
         66 AGAGAAGCCATAGAAAATTCTCAAG

                                                                             
        340 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
          1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT

                                     
        405 AGAGAAGCCATAGAAAATTCTCAAG
         66 AGAGAAGCCATAGAAAATTCTCAAG

                                             
        430 CAAAGGAACAAGAAGTTGTACATTCAATGGATG
          1 CAAAGGAACAAGAAGTTGTACATTCAATGGATG

        463 CACACAATGC


Statistics
Matches: 118,  Mismatches: 5, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  90  118  1.00

ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25


Consensus pattern (90 bp):   
CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
AGAGAAGCCATAGAAAATTCTCAAG

Found at i:490 original size:90 final size:90

Alignment explanation


    Indices: 250--495  Score: 370
    Period size: 90  Copynumber: 2.7  Consensus size: 90

        240 GATCCAAAAA

                *                  *                                  *      
        250 CAAATGAACAAGAAGTTGTACATACAATGGATGTGTGCAATGCTTCAAC-GGTTGAAGGTTGTCA
          1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTC-ACTGGTTGAAGATTGTCA

                  *                   
        314 TAGAGATGCCATAGAAAATTCTCAAG
         65 TAGAGAAGCCATAGAAAATTCTCAAG

                                                           *                 
        340 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
          1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCACTGGTTGAAGATTGTCAT

                                     
        405 AGAGAAGCCATAGAAAATTCTCAAG
         66 AGAGAAGCCATAGAAAATTCTCAAG

                                             ****                   *        
        430 CAAAGGAACAAGAAGTTGTACATTCAATGGATGCACACAATGCTTCACCTGG-TGATGATTGTCA
          1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCA-CTGGTTGAAGATTGTCA

              
        494 TA
         65 TA

        496 AAGATACTCT


Statistics
Matches: 143,  Mismatches: 11, Indels: 4
        0.91            0.07        0.03

Matches are distributed among these distances:
  89    1  0.01
  90  139  0.97
  91    3  0.02

ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26


Consensus pattern (90 bp):   
CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCACTGGTTGAAGATTGTCAT
AGAGAAGCCATAGAAAATTCTCAAG
Done.