Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1525

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, 962

Length: 1604
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35


Found at i:403 original size:6 final size:6

Alignment explanation


    Indices: 392--429  Score: 55
    Period size: 6  Copynumber: 6.8  Consensus size: 6

        382 ATTTTATTAA

                                                           
        392 AATTTT AATTTT AA-TTT --TTTT AATTTT AATTTT AATTT
          1 AATTTT AATTTT AATTTT AATTTT AATTTT AATTTT AATTT

        430 CTTTTCCCAA


Statistics
Matches: 29,  Mismatches: 0, Indels: 6
        0.83            0.00        0.17

Matches are distributed among these distances:
   4    3  0.10
   5    3  0.10
   6   23  0.79

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (6 bp):   
AATTTT

Found at i:414 original size:15 final size:15

Alignment explanation


    Indices: 394--424  Score: 62
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        384 TTTATTAAAA

                           
        394 TTTTAATTTTAATTT
          1 TTTTAATTTTAATTT

                           
        409 TTTTAATTTTAATTT
          1 TTTTAATTTTAATTT

             
        424 T
          1 T

        425 AATTTCTTTT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74


Consensus pattern (15 bp):   
TTTTAATTTTAATTT

Found at i:418 original size:21 final size:22

Alignment explanation


    Indices: 392--434  Score: 79
    Period size: 21  Copynumber: 2.0  Consensus size: 22

        382 ATTTTATTAA

                                  
        392 AATTTTAATTTTAATTT-TTTT
          1 AATTTTAATTTTAATTTCTTTT

                                  
        413 AATTTTAATTTTAATTTCTTTT
          1 AATTTTAATTTTAATTTCTTTT

        435 CCCAAAAAAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  21   17  0.81
  22    4  0.19

ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70


Consensus pattern (22 bp):   
AATTTTAATTTTAATTTCTTTT
Done.