Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: LOC111278651

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: 3154
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24


Found at i:1387 original size:99 final size:99

Alignment explanation


    Indices: 1194--1393  Score: 233
    Period size: 99  Copynumber: 2.0  Consensus size: 99

       1184 AGAAAAATAT

                                                 **     **                   
       1194 CCAGCAACACCAGCAGAAGTTTCATCGCCACCCCCACCTTCACAGGGAGCAAAGTTGTCAACAGA
          1 CCAGCAACACCAGCAGAAGTTTCATCGCCACCCCCACAATCACACCGAGCAAAGTTGTCAACAGA

                *       *   *   *  **         
       1259 CATGGAGACAGAGATAGGACTACTTCCACCACCA
         66 CATGAAGACAGACATAAGACCACCACCACCACCA

                  *  *            *                                          
       1293 CCAGCACCATCAGCAGAAGTTTTATCGCCACCCCCACAATCACAACCGA-CAAAGTTGTCAACAG
          1 CCAGCAACACCAGCAGAAGTTTCATCGCCACCCCCACAATCAC-ACCGAGCAAAGTTGTCAACAG

             *        *                         
       1357 ATATGCAAG-TAGACATAAGACCACCACCACCACCA
         65 ACATG-AAGACAGACATAAGACCACCACCACCACCA

              
       1392 CC
          1 CC

       1394 GTTCTTGCAG


Statistics
Matches: 84,  Mismatches: 15, Indels: 4
        0.82            0.15        0.04

Matches are distributed among these distances:
  99   79  0.94
 100    5  0.06

ACGTcount: A:0.35, C:0.35, G:0.16, T:0.14


Consensus pattern (99 bp):   
CCAGCAACACCAGCAGAAGTTTCATCGCCACCCCCACAATCACACCGAGCAAAGTTGTCAACAGA
CATGAAGACAGACATAAGACCACCACCACCACCA
Done.