Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold584

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: 28631
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.31

Warning! 2286 characters in sequence are not A, C, G, or T


Found at i:1760 original size:19 final size:19

Alignment explanation


    Indices: 1715--1762  Score: 53
    Period size: 19  Copynumber: 2.5  Consensus size: 19

       1705 CTGAGGTCAA

                                
       1715 TTTGAAACAAAATGGAAAAG
          1 TTTGAAA-AAAATGGAAAAG

              *                *
       1735 TTAGAAAAAAGAT-GAAAAT
          1 TTTGAAAAAA-ATGGAAAAG

                     
       1754 TTTGAAAAA
          1 TTTGAAAAA

       1763 TAAGGGACAC


Statistics
Matches: 24,  Mismatches: 3, Indels: 3
        0.80            0.10        0.10

Matches are distributed among these distances:
  19   16  0.67
  20    8  0.33

ACGTcount: A:0.58, C:0.02, G:0.17, T:0.23


Consensus pattern (19 bp):   
TTTGAAAAAAATGGAAAAG

Found at i:4484 original size:17 final size:17

Alignment explanation


    Indices: 4459--4492  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

       4449 CAGAATATTC

                *            
       4459 ATTATCTAATCCACAAA
          1 ATTAGCTAATCCACAAA

                             
       4476 ATTAGCTAATCCACAAA
          1 ATTAGCTAATCCACAAA

       4493 GCAAAGAATA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26


Consensus pattern (17 bp):   
ATTAGCTAATCCACAAA

Found at i:10943 original size:11 final size:11

Alignment explanation


    Indices: 10927--10951  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

      10917 AATTACAATT

                       
      10927 AATCAATTCAC
          1 AATCAATTCAC

                       
      10938 AATCAATTCAC
          1 AATCAATTCAC

               
      10949 AAT
          1 AAT

      10952 AAACATACAC


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28


Consensus pattern (11 bp):   
AATCAATTCAC
Done.