Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_280 ID=scaffold_280-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: 9854
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.28

Warning! 1167 characters in sequence are not A, C, G, or T


Found at i:5389 original size:26 final size:26

Alignment explanation


    Indices: 5359--5409  Score: 93
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       5349 AATAAAAGAA

                                      
       5359 AACATTCAATATATCAGTTTAATTAC
          1 AACATTCAATATATCAGTTTAATTAC

                        *            
       5385 AACATTCAATATTTCAGTTTAATTA
          1 AACATTCAATATATCAGTTTAATTA

       5410 GCATTAATTT


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   24  1.00

ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41


Consensus pattern (26 bp):   
AACATTCAATATATCAGTTTAATTAC

Found at i:7584 original size:26 final size:26

Alignment explanation


    Indices: 7547--7598  Score: 86
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       7537 AATAAAAGAA

                   *                  
       7547 AACATTCGATATTTCAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

                            *         
       7573 AACATTCAATATTTCATTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

       7599 CATTAATTTT


Statistics
Matches: 24,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  26   24  1.00

ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44


Consensus pattern (26 bp):   
AACATTCAATATTTCAGTTTAATTAG

Found at i:9697 original size:26 final size:26

Alignment explanation


    Indices: 9667--9718  Score: 104
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       9657 AATAAAAGAA

                                      
       9667 AACATTCAATATTTCAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

                                      
       9693 AACATTCAATATTTCAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

       9719 CATTAATTTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  26   26  1.00

ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42


Consensus pattern (26 bp):   
AACATTCAATATTTCAGTTTAATTAG
Done.