Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold864

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: 4995
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.30

Warning! 473 characters in sequence are not A, C, G, or T


Found at i:1090 original size:26 final size:26

Alignment explanation


    Indices: 1061--1110  Score: 91
    Period size: 26  Copynumber: 1.9  Consensus size: 26

       1051 AATAAAAGAA

                          *           
       1061 AACATTCAATATTTTAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

                                    
       1087 AACATTCAATATTTCAGTTTAATT
          1 AACATTCAATATTTCAGTTTAATT

       1111 TGCATTCATT


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   23  1.00

ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46


Consensus pattern (26 bp):   
AACATTCAATATTTCAGTTTAATTAG

Found at i:2664 original size:15 final size:14

Alignment explanation


    Indices: 2644--2674  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 14

       2634 AGCCGTTTGT

                           
       2644 TAGCTTAAGCAATCA
          1 TAGCTTAAGCAA-CA

                          
       2659 TAGCTTAAGCAACA
          1 TAGCTTAAGCAACA

              
       2673 TA
          1 TA

       2675 TATTCTTAAG


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    4  0.25
  15   12  0.75

ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26


Consensus pattern (14 bp):   
TAGCTTAAGCAACA

Found at i:3185 original size:18 final size:15

Alignment explanation


    Indices: 3141--3172  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       3131 CACATTGGAC

                           
       3141 TAGAATACGTTACAA
          1 TAGAATACGTTACAA

                           
       3156 TAGAATACGTTACAA
          1 TAGAATACGTTACAA

              
       3171 TA
          1 TA

       3173 AAAGAATACG


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28


Consensus pattern (15 bp):   
TAGAATACGTTACAA
Done.