Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_457 ID=scaffold_457-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: 6770
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31


Found at i:1523 original size:25 final size:25

Alignment explanation


    Indices: 1495--1549  Score: 74
    Period size: 25  Copynumber: 2.2  Consensus size: 25

       1485 AACTGTCCTT

                      *        *     
       1495 GATAGTATATCCTAAAACTGCTATA
          1 GATAGTATATACTAAAACTACTATA

                         * *         
       1520 GATAGTATATACTGAGACTACTATA
          1 GATAGTATATACTAAAACTACTATA

                 
       1545 GATAG
          1 GATAG

       1550 ACCATACTGA


Statistics
Matches: 26,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  25   26  1.00

ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31


Consensus pattern (25 bp):   
GATAGTATATACTAAAACTACTATA

Found at i:5238 original size:24 final size:23

Alignment explanation


    Indices: 5187--5239  Score: 56
    Period size: 23  Copynumber: 2.3  Consensus size: 23

       5177 CAATACAGTC

                                    
       5187 ATTTTTCTCTCCATCTTTCTAACG
          1 ATTTTTCTCTCCATC-TTCTAACG

                                  *  
       5211 -TTTTCTCTCTCCCATC-TCTACCG
          1 ATTTT-TCTCT-CCATCTTCTAACG

                  
       5234 ATTTTT
          1 ATTTTT

       5240 TTCTTCCTTA


Statistics
Matches: 25,  Mismatches: 1, Indels: 7
        0.76            0.03        0.21

Matches are distributed among these distances:
  23   11  0.44
  24    9  0.36
  25    5  0.20

ACGTcount: A:0.13, C:0.32, G:0.04, T:0.51


Consensus pattern (23 bp):   
ATTTTTCTCTCCATCTTCTAACG
Done.