Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_499 ID=scaffold_499-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: 6412
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35


Found at i:1651 original size:23 final size:22

Alignment explanation


    Indices: 1611--1662  Score: 59
    Period size: 23  Copynumber: 2.3  Consensus size: 22

       1601 AACCTCCGTT

                 *                 
       1611 TCTTCTCTCTTTTCAAACGCCTC
          1 TCTTCCCT-TTTTCAAACGCCTC

                         *     *   
       1634 TCGTTCCCTTTTTGAAACGTCTC
          1 TC-TTCCCTTTTTCAAACGCCTC

                  
       1657 TCTTCC
          1 TCTTCC

       1663 TTCCTTTGAG


Statistics
Matches: 25,  Mismatches: 3, Indels: 3
        0.81            0.10        0.10

Matches are distributed among these distances:
  22    4  0.16
  23   16  0.64
  24    5  0.20

ACGTcount: A:0.12, C:0.37, G:0.08, T:0.44


Consensus pattern (22 bp):   
TCTTCCCTTTTTCAAACGCCTC

Found at i:1776 original size:30 final size:30

Alignment explanation


    Indices: 1742--1798  Score: 96
    Period size: 30  Copynumber: 1.9  Consensus size: 30

       1732 CTTCTGATTT

                         *      *         
       1742 AATTCGTCGTCTCGTCGTTCTAAATTATCC
          1 AATTCGTCGTCTCATCGTTCGAAATTATCC

                                       
       1772 AATTCGTCGTCTCATCGTTCGAAATTA
          1 AATTCGTCGTCTCATCGTTCGAAATTA

       1799 CCCTTCTGTT


Statistics
Matches: 25,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  30   25  1.00

ACGTcount: A:0.23, C:0.25, G:0.14, T:0.39


Consensus pattern (30 bp):   
AATTCGTCGTCTCATCGTTCGAAATTATCC
Done.