Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g01174.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, 621

Length: 1036
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32


Found at i:387 original size:26 final size:26

Alignment explanation


    Indices: 324--399  Score: 98
    Period size: 26  Copynumber: 2.8  Consensus size: 26

        314 AAAAGTAGCT

                    * *            *  * 
        324 AAATTACTATAATACCCCTATGTATGGA
          1 AAATTACTGTTATACCCCTA-G-GTGCA

                                      
        352 AAATTACTGTTATACCCCTAGGTGCA
          1 AAATTACTGTTATACCCCTAGGTGCA

                                  
        378 AAATTACTGTTATACCCCTAGG
          1 AAATTACTGTTATACCCCTAGG

        400 ATTAATTTTG


Statistics
Matches: 44,  Mismatches: 4, Indels: 2
        0.88            0.08        0.04

Matches are distributed among these distances:
  26   25  0.57
  27    1  0.02
  28   18  0.41

ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32


Consensus pattern (26 bp):   
AAATTACTGTTATACCCCTAGGTGCA

Found at i:536 original size:27 final size:26

Alignment explanation


    Indices: 496--636  Score: 183
    Period size: 27  Copynumber: 5.2  Consensus size: 26

        486 AGGAAGCGTC

                     *                 
        496 CTGGTGGCTATGCCACAATTATCTGAT
          1 CTGGTGGCTCTGCCAC-ATTATCTGAT

                                     * 
        523 CTGGTGGCTCTGCCACATATATCTGTT
          1 CTGGTGGCTCTGCCACAT-TATCTGAT

                     *                 
        550 CTGGTGGCTATGCCACGATTATCTGAT
          1 CTGGTGGCTCTGCCAC-ATTATCTGAT

                                     * 
        577 CTGGTGGCTCTGCCACATATATCTGTT
          1 CTGGTGGCTCTGCCACAT-TATCTGAT

                       *     *         
        604 CTGGTGGCTCTACCACAATATCTGTAT
          1 CTGGTGGCTCTGCCACATTATCTG-AT

                  
        631 CTGGTG
          1 CTGGTG

        637 ACTTAGTCAC


Statistics
Matches: 101,  Mismatches: 9, Indels: 8
        0.86            0.08        0.07

Matches are distributed among these distances:
  26   10  0.10
  27   89  0.88
  28    2  0.02

ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35


Consensus pattern (26 bp):   
CTGGTGGCTCTGCCACATTATCTGAT

Found at i:578 original size:54 final size:53

Alignment explanation


    Indices: 496--636  Score: 228
    Period size: 54  Copynumber: 2.6  Consensus size: 53

        486 AGGAAGCGTC

                                                                  
        496 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
          1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT

                                                                  
        550 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
          1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT

                     * *     *               
        604 CTGGTGGCTCTACCACAATATCTGTATCTGGTG
          1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG

        637 ACTTAGTCAC


Statistics
Matches: 82,  Mismatches: 4, Indels: 2
        0.93            0.05        0.02

Matches are distributed among these distances:
  53    7  0.09
  54   75  0.91

ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35


Consensus pattern (53 bp):   
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT

Done.