Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold734

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: 22585
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35


Found at i:3750 original size:18 final size:18

Alignment explanation


    Indices: 3724--3759  Score: 56
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       3714 TAACGTTGAG

                              
       3724 TTCATAATTTAT-TTTTA
          1 TTCATAATTTATATTTTA

                               
       3741 TTCATCAATTTATATTTTA
          1 TTCAT-AATTTATATTTTA

       3760 ATTATTTTCA


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  17    5  0.29
  18    7  0.41
  19    5  0.29

ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61


Consensus pattern (18 bp):   
TTCATAATTTATATTTTA

Found at i:14692 original size:5 final size:5

Alignment explanation


    Indices: 14678--14706  Score: 51
    Period size: 5  Copynumber: 6.0  Consensus size: 5

      14668 ACATAAGTGC

                                               
      14678 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT
          1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT

      14707 ATTGTTTCAC


Statistics
Matches: 24,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
   4    4  0.17
   5   20  0.83

ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79


Consensus pattern (5 bp):   
TTTAT

Found at i:16663 original size:20 final size:21

Alignment explanation


    Indices: 16633--16673  Score: 75
    Period size: 20  Copynumber: 2.0  Consensus size: 21

      16623 GCAGTGGGTC

                                 
      16633 GCTGCCCGGATCCAACAGAAA
          1 GCTGCCCGGATCCAACAGAAA

                                 
      16654 GCTG-CCGGATCCAACAGAAA
          1 GCTGCCCGGATCCAACAGAAA

      16674 CCATAAGGCG


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  20   16  0.80
  21    4  0.20

ACGTcount: A:0.34, C:0.32, G:0.24, T:0.10


Consensus pattern (21 bp):   
GCTGCCCGGATCCAACAGAAA
Done.