Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01927.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, 248

Length: 414
ACGTcount: A:0.20, C:0.35, G:0.16, T:0.30


Found at i:256 original size:6 final size:6

Alignment explanation


    Indices: 245--274  Score: 51
    Period size: 6  Copynumber: 5.0  Consensus size: 6

        235 CCTATGAGGT

                              *               
        245 CACCCC CACCCC CACCGC CACCCC CACCCC
          1 CACCCC CACCCC CACCCC CACCCC CACCCC

        275 ACCTCCTCCT


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.17, C:0.80, G:0.03, T:0.00


Consensus pattern (6 bp):   
CACCCC

Found at i:274 original size:23 final size:23

Alignment explanation


    Indices: 248--295  Score: 60
    Period size: 23  Copynumber: 2.1  Consensus size: 23

        238 ATGAGGTCAC

                               *   
        248 CCCCACCCCCACCGCCACCCCCA
          1 CCCCACCCCCACCGCCACCACCA

                   *  *  *         
        271 CCCCACCTCCTCCTCCACCACCA
          1 CCCCACCCCCACCGCCACCACCA

              
        294 CC
          1 CC

        296 ACCTCCTCCT


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  23   21  1.00

ACGTcount: A:0.17, C:0.75, G:0.02, T:0.06


Consensus pattern (23 bp):   
CCCCACCCCCACCGCCACCACCA

Found at i:299 original size:21 final size:20

Alignment explanation


    Indices: 268--307  Score: 71
    Period size: 21  Copynumber: 1.9  Consensus size: 20

        258 ACCGCCACCC

                                
        268 CCACCCCACCTCCTCCTCCA
          1 CCACCCCACCTCCTCCTCCA

                                
        288 CCACCACCACCTCCTCCTCC
          1 CCACC-CCACCTCCTCCTCC

        308 TCTTCGCCAC


Statistics
Matches: 19,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  20    5  0.26
  21   14  0.74

ACGTcount: A:0.15, C:0.70, G:0.00, T:0.15


Consensus pattern (20 bp):   
CCACCCCACCTCCTCCTCCA

Found at i:300 original size:18 final size:17

Alignment explanation


    Indices: 254--304  Score: 57
    Period size: 17  Copynumber: 2.9  Consensus size: 17

        244 TCACCCCCAC

                   *  *  *   
        254 CCCCACCGCCACCCCCA
          1 CCCCACCACCTCCTCCA

                   *         
        271 CCCCACCTCCTCCTCCA
          1 CCCCACCACCTCCTCCA

                             
        288 CCACCACCACCTCCTCC
          1 CC-CCACCACCTCCTCC

        305 TCCTCTTCGC


Statistics
Matches: 29,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  17   16  0.55
  18   13  0.45

ACGTcount: A:0.16, C:0.73, G:0.02, T:0.10


Consensus pattern (17 bp):   
CCCCACCACCTCCTCCA

Found at i:317 original size:26 final size:26

Alignment explanation


    Indices: 259--318  Score: 68
    Period size: 26  Copynumber: 2.3  Consensus size: 26

        249 CCCACCCCCA

                    *                 
        259 CCGCCACCCCCACCCCACCTCCTCCT
          1 CCGCCACCACCACCCCACCTCCTCCT

              *              *         
        285 CCACCACCACCACCTCCTCCTCCT-CT
          1 CCGCCACCACCACC-CCACCTCCTCCT

            *       
        311 TCGCCACC
          1 CCGCCACC

        319 GTTATGTGCC


Statistics
Matches: 28,  Mismatches: 5, Indels: 2
        0.80            0.14        0.06

Matches are distributed among these distances:
  26   20  0.71
  27    8  0.29

ACGTcount: A:0.13, C:0.68, G:0.03, T:0.15


Consensus pattern (26 bp):   
CCGCCACCACCACCCCACCTCCTCCT
Done.