Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_150 ID=scaffold_150-JGI_221_v2.0

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: 10733
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33


Found at i:3464 original size:27 final size:28

Alignment explanation


    Indices: 3407--3482  Score: 86
    Period size: 28  Copynumber: 2.8  Consensus size: 28

       3397 ATTAATTCAG

                *                        
       3407 CTAAAACATATTAAAAAT-ATGTAATAGA
          1 CTAAGACATATT-AAAATCATGTAATAGA

                                   *    
       3435 CTAAGACATATTAAAATCATGTACTA-A
          1 CTAAGACATATTAAAATCATGTAATAGA

               *                  
       3462 CTATGACATATTTAAAA-CATG
          1 CTAAGACATA-TTAAAATCATG

       3483 CATTAAAATT


Statistics
Matches: 43,  Mismatches: 3, Indels: 5
        0.84            0.06        0.10

Matches are distributed among these distances:
  27   19  0.44
  28   24  0.56

ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30


Consensus pattern (28 bp):   
CTAAGACATATTAAAATCATGTAATAGA

Found at i:3720 original size:35 final size:34

Alignment explanation


    Indices: 3633--3731  Score: 125
    Period size: 35  Copynumber: 3.0  Consensus size: 34

       3623 TGAACTGGTC

                                       *      
       3633 GATCGTCGTAACTTGTTAAAGCATCTTAGAGC-T
          1 GATCGTCGTAACTTGTTAAAGCATCTTGGAGCTT

                  * * *                       
       3666 --TC-TTGGAGCTTGTTAAAGCATCTTGGAGCTT
          1 GATCGTCGTAACTTGTTAAAGCATCTTGGAGCTT

                                               
       3697 GGATCGTCGTAACTTGTTAAAGCATCTTGGAGCTT
          1 -GATCGTCGTAACTTGTTAAAGCATCTTGGAGCTT

       3732 CTTGGCACGA


Statistics
Matches: 54,  Mismatches: 7, Indels: 8
        0.78            0.10        0.12

Matches are distributed among these distances:
  30   23  0.43
  31    3  0.06
  34    2  0.04
  35   26  0.48

ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35


Consensus pattern (34 bp):   
GATCGTCGTAACTTGTTAAAGCATCTTGGAGCTT
Done.