Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00125.N1

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, 931

Length: 1553
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28


Found at i:741 original size:27 final size:27

Alignment explanation


    Indices: 710--766  Score: 87
    Period size: 27  Copynumber: 2.1  Consensus size: 27

        700 GGACAACTAC

                    *                  
        710 AGGAGTTGCACAAAGCAAACAACCTTG
          1 AGGAGTTGAACAAAGCAAACAACCTTG

                           *   *       
        737 AGGAGTTGAACAAAGTAAAGAACCTTG
          1 AGGAGTTGAACAAAGCAAACAACCTTG

               
        764 AGG
          1 AGG

        767 CAATCTACCT


Statistics
Matches: 27,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  27   27  1.00

ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16


Consensus pattern (27 bp):   
AGGAGTTGAACAAAGCAAACAACCTTG

Found at i:1530 original size:183 final size:186

Alignment explanation


    Indices: 1205--1553  Score: 598
    Period size: 183  Copynumber: 1.9  Consensus size: 186

       1195 GAAGTTCGAG

                                                         *             *     
       1205 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCTTATGCTTCAATTCTCTCCA
          1 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCATATGCTTCAATTCCCTCCA

                                                                             
       1270 CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
         66 CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT

                                                                    
       1335 GTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
        131 GTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT

                  *    *                 *                    *              
       1391 GCTTAGGTGCTGGGATGTCTACATTGGAGGAACATATCG-TT-T-ATATGTTTCAATTCCCTCCA
          1 GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCATATGCTTCAATTCCCTCCA

                                                                             
       1453 CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGGTTTT-TTTGGA
         66 CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCAT-GTTTTATTTGGA

                  *                              
       1517 TGTTTTCCATTGTTTTCCTATCTCTATGTTTGTTGCA
        130 TGTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCA


Statistics
Matches: 155,  Mismatches: 7, Indels: 5
        0.93            0.04        0.03

Matches are distributed among these distances:
 183  111  0.72
 184    6  0.04
 185    2  0.01
 186   36  0.23

ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42


Consensus pattern (186 bp):   
GCTTAGATGCTAGGATGTCTACATTGGAGAAACATATCGCTTATCATATGCTTCAATTCCCTCCA
CCACAGCCTCCTCAAGATAGCTAGGACTCATTTTGCATTCATGGATTTTCATGTTTTATTTGGAT
GTTTTACATTGTTTTCCTATCTCTATGTTTGTTGCACTTTAATGATTACTTAGTAT
Done.