Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2399

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, 574

Length: 958
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30


Found at i:532 original size:20 final size:20

Alignment explanation


    Indices: 509--574  Score: 60
    Period size: 20  Copynumber: 3.2  Consensus size: 20

        499 TGTGCAATTC

                                
        509 AGGGGTACCAAAGTACAAAT
          1 AGGGGTACCAAAGTACAAAT

                 * *** *  *    * 
        529 AGGGGCATGTATGTGCAATTT
          1 AGGGGTACCAAAGTACAA-AT

                                
        550 AGGGGTACCAAAGTACAAAT
          1 AGGGGTACCAAAGTACAAAT

                 
        570 AGGGG
          1 AGGGG

        575 CACGTATGTG


Statistics
Matches: 31,  Mismatches: 14, Indels: 2
        0.66            0.30        0.04

Matches are distributed among these distances:
  20   18  0.58
  21   13  0.42

ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20


Consensus pattern (20 bp):   
AGGGGTACCAAAGTACAAAT

Found at i:545 original size:41 final size:41

Alignment explanation


    Indices: 489--630  Score: 223
    Period size: 41  Copynumber: 3.5  Consensus size: 41

        479 AAGTTTAAAC

                      *                              
        489 AGGGG-ACGTGTGTGCAATTCAGGGGTACCAAAGTACAAAT
          1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT

                   *            *                    
        529 AGGGGCATGTATGTGCAATTTAGGGGTACCAAAGTACAAAT
          1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT

                                         **         *
        570 AGGGGCACGTATGTGCAATTCAGGGGTACTGAAGTACAAAC
          1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT

                                
        611 AGGGGCACGTATGTGCAATT
          1 AGGGGCACGTATGTGCAATT

        631 TATCATTTTT


Statistics
Matches: 93,  Mismatches: 8, Indels: 1
        0.91            0.08        0.01

Matches are distributed among these distances:
  40    5  0.05
  41   88  0.95

ACGTcount: A:0.32, C:0.15, G:0.32, T:0.22


Consensus pattern (41 bp):   
AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAT
Done.