Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1304

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: 180634
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33


File 2 of 2

Found at i:179311 original size:36 final size:36

Alignment explanation


    Indices: 179264--179334  Score: 92
    Period size: 36  Copynumber: 2.0  Consensus size: 36

     179254 AAAATATTAT

                                                  
     179264 ATTTTTATATAT-T-TTTTACATATAATAATTTATTTG
          1 ATTTTTATATATATATTTT-CATAT-ATAATTTATTTG

                  *            *               
     179300 ATTTTTTTATATATATTTTTATATATAATTTATTT
          1 ATTTTTATATATATATTTTCATATATAATTTATTT

     179335 TATATATGGG


Statistics
Matches: 31,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  36   22  0.71
  37    5  0.16
  38    4  0.13

ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65


Consensus pattern (36 bp):   
ATTTTTATATATATATTTTCATATATAATTTATTTG

Found at i:179319 original size:14 final size:14

Alignment explanation


    Indices: 179300--179341  Score: 59
    Period size: 14  Copynumber: 3.0  Consensus size: 14

     179290 AATTTATTTG

                          
     179300 ATTTTTTTATATAT
          1 ATTTTTTTATATAT

                  *       
     179314 ATTTTTATATATA-
          1 ATTTTTTTATATAT

                           
     179327 ATTTATTTTATATAT
          1 ATTT-TTTTATATAT

     179342 GGGAGGAAAA


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  13    4  0.17
  14   20  0.83

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (14 bp):   
ATTTTTTTATATAT

Done.