Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1238

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: 2300
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.27

Warning! 310 characters in sequence are not A, C, G, or T


Found at i:1306 original size:19 final size:19

Alignment explanation


    Indices: 1282--1323  Score: 84
    Period size: 19  Copynumber: 2.2  Consensus size: 19

       1272 AAATTGAATT

                               
       1282 TTCTGTTTTCATTTGCATC
          1 TTCTGTTTTCATTTGCATC

                               
       1301 TTCTGTTTTCATTTGCATC
          1 TTCTGTTTTCATTTGCATC

                
       1320 TTCT
          1 TTCT

       1324 AATTTCTAAT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   23  1.00

ACGTcount: A:0.10, C:0.21, G:0.10, T:0.60


Consensus pattern (19 bp):   
TTCTGTTTTCATTTGCATC

Found at i:1329 original size:19 final size:19

Alignment explanation


    Indices: 1288--1329  Score: 66
    Period size: 19  Copynumber: 2.2  Consensus size: 19

       1278 AATTTTCTGT

                             **
       1288 TTTCATTTGCATCTTCTGT
          1 TTTCATTTGCATCTTCTAA

                               
       1307 TTTCATTTGCATCTTCTAA
          1 TTTCATTTGCATCTTCTAA

                
       1326 TTTC
          1 TTTC

       1330 TAATTTCTAA


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  19   21  1.00

ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57


Consensus pattern (19 bp):   
TTTCATTTGCATCTTCTAA
Done.