Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_262 ID=scaffold_262-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: 8841
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34


Found at i:4513 original size:16 final size:18

Alignment explanation


    Indices: 4477--4514  Score: 53
    Period size: 16  Copynumber: 2.2  Consensus size: 18

       4467 GATAATAATA

                          *   
       4477 ATTCATTCCAAATATTTT
          1 ATTCATTCCAAATAGTTT

                              
       4495 ATTCATT-CAAAT-GTTT
          1 ATTCATTCCAAATAGTTT

                
       4511 ATTC
          1 ATTC

       4515 TCTCCCCCGA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  16    7  0.37
  17    5  0.26
  18    7  0.37

ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50


Consensus pattern (18 bp):   
ATTCATTCCAAATAGTTT

Found at i:5570 original size:39 final size:39

Alignment explanation


    Indices: 5527--5603  Score: 154
    Period size: 39  Copynumber: 2.0  Consensus size: 39

       5517 CCATATTTTT

                                                   
       5527 TATTAATAAAAAATATAAAAAGAAATACTATAAATAATG
          1 TATTAATAAAAAATATAAAAAGAAATACTATAAATAATG

                                                  
       5566 TATTAATAAAAAATATAAAAAGAAATACTATAAATAAT
          1 TATTAATAAAAAATATAAAAAGAAATACTATAAATAAT

       5604 CATAAGAATA


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  39   38  1.00

ACGTcount: A:0.65, C:0.03, G:0.04, T:0.29


Consensus pattern (39 bp):   
TATTAATAAAAAATATAAAAAGAAATACTATAAATAATG

Done.