Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_583 ID=scaffold_583-JGI_221_v2.0

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: 5700
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.31

Warning! 206 characters in sequence are not A, C, G, or T


Found at i:245 original size:132 final size:132

Alignment explanation


    Indices: 1--245  Score: 402
    Period size: 132  Copynumber: 1.9  Consensus size: 132

                   *                                            *            
          1 ATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCATCGATCTGCTTCACTACTGCTTA
          1 ATGTACTACACTGTAACCACAGGGAGGTAAAATCTGCCATCATCGATCTGCTCCACTACTGCTTA

                        *            *   *   *     *                         
         66 GGGAGACAAGATTTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTT
         66 GGGAGACAAGATCTGAAATCTTCAACCTACTCCACTGCTCTCCAGGGAAGTAGAATTACTGGCTT

              
        131 CA
        131 CA

                                                                             
        133 ATGTACTACACTGTAACCACAGGGAGGTAAAATCTGCCATCATCGATCTGCTCCACTACTGCTTA
          1 ATGTACTACACTGTAACCACAGGGAGGTAAAATCTGCCATCATCGATCTGCTCCACTACTGCTTA

                                        *                    
        198 GGGAGACAAGATCTGAAATCTTCAACCTGCTCCACTG-TCTCCGAGGGA
         66 GGGAGACAAGATCTGAAATCTTCAACCTACTCCACTGCTCTCC-AGGGA

        246 GGCGAGGTTG


Statistics
Matches: 104,  Mismatches: 8, Indels: 2
        0.91            0.07        0.02

Matches are distributed among these distances:
 131    4  0.04
 132  100  0.96

ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26


Consensus pattern (132 bp):   
ATGTACTACACTGTAACCACAGGGAGGTAAAATCTGCCATCATCGATCTGCTCCACTACTGCTTA
GGGAGACAAGATCTGAAATCTTCAACCTACTCCACTGCTCTCCAGGGAAGTAGAATTACTGGCTT
CA

Found at i:1547 original size:22 final size:22

Alignment explanation


    Indices: 1522--1567  Score: 67
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       1512 TTAGCCTCTC

                  *                
       1522 CATTTTTA-CTTTTTCATTTTTT
          1 CATTTTCATCTTTTT-ATTTTTT

                                  
       1544 CATTTTCATCTTTTTATTTTTT
          1 CATTTTCATCTTTTTATTTTTT

              
       1566 CA
          1 CA

       1568 CATCACTTCT


Statistics
Matches: 22,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  22   16  0.73
  23    6  0.27

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


Consensus pattern (22 bp):   
CATTTTCATCTTTTTATTTTTT
Done.