Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: LOC111315726

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: 2334
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30


Found at i:1828 original size:43 final size:43

Alignment explanation


    Indices: 1780--1861  Score: 121
    Period size: 43  Copynumber: 1.9  Consensus size: 43

       1770 GGCGGTGTCA

                          *       *   *                 
       1780 GCTTGTCAGTTCTGGAG-AAATGATTTGTAGTACATTTGACGTG
          1 GCTTGTCAGTTCTGCAGCAAA-AATTAGTAGTACATTTGACGTG

                                                   
       1823 GCTTGTCAGTTCTGCAGCAAAAATTAGTAGTACATTTGA
          1 GCTTGTCAGTTCTGCAGCAAAAATTAGTAGTACATTTGA

       1862 TATGTGGTGA


Statistics
Matches: 35,  Mismatches: 3, Indels: 2
        0.88            0.08        0.05

Matches are distributed among these distances:
  43   32  0.91
  44    3  0.09

ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35


Consensus pattern (43 bp):   
GCTTGTCAGTTCTGCAGCAAAAATTAGTAGTACATTTGACGTG

Found at i:2273 original size:151 final size:151

Alignment explanation


    Indices: 1909--2334  Score: 791
    Period size: 150  Copynumber: 2.8  Consensus size: 151

       1899 TTGTATTAAT

                  *                                                          
       1909 ATTAAATTGATTGGTCCCTCCGTGGAAATGTGATGTATTGCCCCATTTTTCTTGCTTCTTTTTTA
          1 ATTAAACTGATTGGTCCCTCCGTGGAAATGTGATGTATTGCCCCATTTTTCTTGCTTCTTTTTTA

                                                                             
       1974 ACCACACAAGTAAACCGATAAGTTTTTTGTTAGGCCCATAAGCATATAACGAGAAATCAACGACT
         66 ACCACACAAGTAAACCGATAAGTTTTTTGTTAGGCCCATAAGCATATAACGAGAAATCAACGACT

                                 
       2039 TCATATAGCTTTTGTCTTTTC
        131 TCATATAGCTTTTGTCTTTTC

                                                                             
       2060 ATTAAACTGATTGGTCCCTCCGTGGAAATGTGATGTATTGCCCCATTTTTCTTGCTTCTTTTTTA
          1 ATTAAACTGATTGGTCCCTCCGTGGAAATGTGATGTATTGCCCCATTTTTCTTGCTTCTTTTTTA

                                            *                            *   
       2125 ACCACACAAGTAAACCGATAAGTTTTTT-TTAAGCCCATAAGCATATAACGAGAAATCAACTACT
         66 ACCACACAAGTAAACCGATAAGTTTTTTGTTAGGCCCATAAGCATATAACGAGAAATCAACGACT

                                 
       2189 TCATATAGCTTTTGTCTTTTC
        131 TCATATAGCTTTTGTCTTTTC

                                                 *  *                        
       2210 ATTAAACTGATTGGTCCCTCCGTGGAAATGTGATGTACTGGCCCATTTTTCTTGCTTCTTTTTTA
          1 ATTAAACTGATTGGTCCCTCCGTGGAAATGTGATGTATTGCCCCATTTTTCTTGCTTCTTTTTTA

                                                 *                      
       2275 ACCACACAAGTAAACCGATAAGTTTTTTGTTAGGCCCGTAAGCATATAACGAGAAATCAA
         66 ACCACACAAGTAAACCGATAAGTTTTTTGTTAGGCCCATAAGCATATAACGAGAAATCAA


Statistics
Matches: 267,  Mismatches: 7, Indels: 2
        0.97            0.03        0.01

Matches are distributed among these distances:
 150  146  0.55
 151  121  0.45

ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37


Consensus pattern (151 bp):   
ATTAAACTGATTGGTCCCTCCGTGGAAATGTGATGTATTGCCCCATTTTTCTTGCTTCTTTTTTA
ACCACACAAGTAAACCGATAAGTTTTTTGTTAGGCCCATAAGCATATAACGAGAAATCAACGACT
TCATATAGCTTTTGTCTTTTC
Done.