Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03334.C1

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: 5640
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33


Found at i:2316 original size:18 final size:18

Alignment explanation


    Indices: 2279--2317  Score: 60
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       2269 TGTAAGAAAA

                        *  *  
       2279 GGCCTAACACTTTTCCTT
          1 GGCCTAACACTTGTCATT

                              
       2297 GGCCTAACACTTGTCATT
          1 GGCCTAACACTTGTCATT

               
       2315 GGC
          1 GGC

       2318 GAAGTAGACT


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33


Consensus pattern (18 bp):   
GGCCTAACACTTGTCATT

Found at i:5117 original size:24 final size:24

Alignment explanation


    Indices: 5090--5184  Score: 111
    Period size: 24  Copynumber: 4.0  Consensus size: 24

       5080 AAGCAGATTC

                                *   
       5090 CTGGGCAGTCTCTTGGACTGCATG
          1 CTGGGCAGTCTCTTGGACTGAATG

                 *     *             
       5114 CTGGGTAGTCTGTTAGG-CTGAATG
          1 CTGGGCAGTCTCTT-GGACTGAATG

                       *    * *     
       5138 CTGGGCAGTCTGTTGGGCCGAATG
          1 CTGGGCAGTCTCTTGGACTGAATG

                              *    
       5162 CTGGGCAGTCTCTTGGACAGAAT
          1 CTGGGCAGTCTCTTGGACTGAAT

       5185 AATGGGCTGC


Statistics
Matches: 61,  Mismatches: 8, Indels: 4
        0.84            0.11        0.05

Matches are distributed among these distances:
  23    2  0.03
  24   57  0.93
  25    2  0.03

ACGTcount: A:0.16, C:0.20, G:0.36, T:0.28


Consensus pattern (24 bp):   
CTGGGCAGTCTCTTGGACTGAATG

Found at i:5190 original size:24 final size:24

Alignment explanation


    Indices: 5139--5191  Score: 61
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       5129 GGCTGAATGC

                      *    * *    **
       5139 TGGGCAGTCTGTTGGGCCGAATGC
          1 TGGGCAGTCTCTTGGACAGAATAA

                                    
       5163 TGGGCAGTCTCTTGGACAGAATAA
          1 TGGGCAGTCTCTTGGACAGAATAA

                 
       5187 TGGGC
          1 TGGGC

       5192 TGCATAGTGA


Statistics
Matches: 24,  Mismatches: 5, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  24   24  1.00

ACGTcount: A:0.19, C:0.19, G:0.38, T:0.25


Consensus pattern (24 bp):   
TGGGCAGTCTCTTGGACAGAATAA
Done.