Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_177 ID=scaffold_177-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: 11472
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.24

Warning! 1522 characters in sequence are not A, C, G, or T


Found at i:8359 original size:15 final size:15

Alignment explanation


    Indices: 8341--8392  Score: 50
    Period size: 15  Copynumber: 3.3  Consensus size: 15

       8331 TAAATTTTTA

                           
       8341 TTTAATATACTTATT
          1 TTTAATATACTTATT

                    *  *   
       8356 TTTAATATTCTCATT
          1 TTTAATATACTTATT

                *      *     
       8371 GTCTGAATATATTTATT
          1 -T-TTAATATACTTATT

                 
       8388 TTTAA
          1 TTTAA

       8393 AATAATACTA


Statistics
Matches: 28,  Mismatches: 7, Indels: 4
        0.72            0.18        0.10

Matches are distributed among these distances:
  15   16  0.57
  16    2  0.07
  17   10  0.36

ACGTcount: A:0.31, C:0.08, G:0.04, T:0.58


Consensus pattern (15 bp):   
TTTAATATACTTATT

Found at i:8442 original size:20 final size:20

Alignment explanation


    Indices: 8417--8456  Score: 80
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       8407 CTATATCAAA

                                
       8417 TATATAAAGAGTTAAAAAGT
          1 TATATAAAGAGTTAAAAAGT

                                
       8437 TATATAAAGAGTTAAAAAGT
          1 TATATAAAGAGTTAAAAAGT

       8457 AAGTCAAAAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   20  1.00

ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30


Consensus pattern (20 bp):   
TATATAAAGAGTTAAAAAGT
Done.