Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold409

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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


File 25 of 25

Found at i:3893588 original size:13 final size:13

Alignment explanation


    Indices: 3893570--3893594  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

    3893560 ATTACTCAAA

                         
    3893570 TGTATCGATACAT
          1 TGTATCGATACAT

                        
    3893583 TGTATCGATACA
          1 TGTATCGATACA

    3893595 CCGATCTTTG


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36


Consensus pattern (13 bp):   
TGTATCGATACAT

Found at i:3898878 original size:27 final size:27

Alignment explanation


    Indices: 3898842--3898899  Score: 75
    Period size: 27  Copynumber: 2.1  Consensus size: 27

    3898832 GAGCGGGGTA

                               *         
    3898842 AGTATCCCCATCGTAGGAACTAGGG-TGG
          1 AGTATCCCCATCGTA--AAATAGGGTTGG

                                       
    3898870 AGTAT-CCCATCGTAAAATAGGGTTGG
          1 AGTATCCCCATCGTAAAATAGGGTTGG

                
    3898896 AGTA
          1 AGTA

    3898900 ATTCCCGATA


Statistics
Matches: 28,  Mismatches: 1, Indels: 4
        0.85            0.03        0.12

Matches are distributed among these distances:
  25    7  0.25
  26    7  0.25
  27    9  0.32
  28    5  0.18

ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24


Consensus pattern (27 bp):   
AGTATCCCCATCGTAAAATAGGGTTGG

Done.