Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2291

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: 12454
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34


Found at i:5070 original size:13 final size:13

Alignment explanation


    Indices: 5052--5078  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

       5042 ACATTATGCT

                         
       5052 TTGTATCGATACA
          1 TTGTATCGATACA

                         
       5065 TTGTATCGATACA
          1 TTGTATCGATACA

             
       5078 T
          1 T

       5079 AATTATATAT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41


Consensus pattern (13 bp):   
TTGTATCGATACA

Found at i:6620 original size:20 final size:21

Alignment explanation


    Indices: 6595--6646  Score: 61
    Period size: 20  Copynumber: 2.5  Consensus size: 21

       6585 AGGCCAAATG

                            *    
       6595 TATCGATACAATTCAAGC-TA
          1 TATCGATACAATTCAAACATA

                    *    *      *
       6615 TATCGATAAAATTTAAACATT
          1 TATCGATACAATTCAAACATA

                       
       6636 TATCGATACAA
          1 TATCGATACAA

       6647 ACACAGGATT


Statistics
Matches: 26,  Mismatches: 5, Indels: 1
        0.81            0.16        0.03

Matches are distributed among these distances:
  20   15  0.58
  21   11  0.42

ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33


Consensus pattern (21 bp):   
TATCGATACAATTCAAACATA

Found at i:6757 original size:32 final size:32

Alignment explanation


    Indices: 6716--6778  Score: 92
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       6706 AATTTCATAG

                                             
       6716 TGTATCGATAC-AAGCAATTTGTATCGATACAA
          1 TGTATCGATACTAAG-AATTTGTATCGATACAA

                        *  *               
       6748 TGTATCGATACTTAGTATTTGTATCGATACA
          1 TGTATCGATACTAAGAATTTGTATCGATACA

       6779 TCTACATATG


Statistics
Matches: 28,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  32   26  0.93
  33    2  0.07

ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37


Consensus pattern (32 bp):   
TGTATCGATACTAAGAATTTGTATCGATACAA
Done.