Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g02413.F2

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: 4050
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30


Found at i:1332 original size:42 final size:41

Alignment explanation


    Indices: 1286--1407  Score: 172
    Period size: 42  Copynumber: 2.9  Consensus size: 41

       1276 AATCTGATGG

                   *  *    *                          
       1286 TGCATTTGAACCACCTAGGCTCTCCAAGGACAAATCCGATAC
          1 TGCATTTCAATCACCCAGGCTCTCCAAGGACAAA-CCGATAC

                        *                             
       1328 TGCATTTCAATCGCCCAGGCTCTCCAAGGACAAACCAGATAC
          1 TGCATTTCAATCACCCAGGCTCTCCAAGGACAAACC-GATAC

                                    * *           
       1370 TGCATTTCAATCACCCAGGCTCTCGAGGGACAAACCGA
          1 TGCATTTCAATCACCCAGGCTCTCCAAGGACAAACCGA

       1408 ATTCTGACGT


Statistics
Matches: 72,  Mismatches: 7, Indels: 3
        0.88            0.09        0.04

Matches are distributed among these distances:
  41    4  0.06
  42   68  0.94

ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20


Consensus pattern (41 bp):   
TGCATTTCAATCACCCAGGCTCTCCAAGGACAAACCGATAC

Found at i:1421 original size:42 final size:41

Alignment explanation


    Indices: 1302--1433  Score: 144
    Period size: 42  Copynumber: 3.1  Consensus size: 41

       1292 TGAACCACCT

                                           *           
       1302 AGGCTCTCCAAGGACAAATCC-GATACTGCATTTCAATCGCCC
          1 AGGCTCTCCAAGGACAAA-CCAGATACTGCAGTTCAATC-CCC

                                          *           
       1344 AGGCTCTCCAAGGACAAACCAGATACTGCATTTCAATCACCC
          1 AGGCTCTCCAAGGACAAACCAGATACTGCAGTTCAATC-CCC

                    * *              *                 
       1386 AGGCTCTCGAGGGACAAACC-GAATTCTG-ACGTTCAATCCCC
          1 AGGCTCTCCAAGGACAAACCAG-ATACTGCA-GTTCAATCCCC

                   
       1427 TAGGCTC
          1 -AGGCTC

       1434 CCTGAGATAG


Statistics
Matches: 81,  Mismatches: 5, Indels: 8
        0.86            0.05        0.09

Matches are distributed among these distances:
  41    7  0.09
  42   74  0.91

ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20


Consensus pattern (41 bp):   
AGGCTCTCCAAGGACAAACCAGATACTGCAGTTCAATCCCC
Done.