Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_215 ID=scaffold_215-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: 9273
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31


Found at i:5884 original size:19 final size:19

Alignment explanation


    Indices: 5860--5907  Score: 59
    Period size: 19  Copynumber: 2.7  Consensus size: 19

       5850 TTTTTCGCTC

                               
       5860 CAACTTGAAATGATCCAAA
          1 CAACTTGAAATGATCCAAA

                               
       5879 CAACTTGAAA-GA-CCAAA
          1 CAACTTGAAATGATCCAAA

                     *    
       5896 -AA-TTGAAGTGAT
          1 CAACTTGAAATGAT

       5908 TATAACCTAA


Statistics
Matches: 26,  Mismatches: 1, Indels: 6
        0.79            0.03        0.18

Matches are distributed among these distances:
  15    5  0.19
  16    4  0.15
  17    5  0.19
  18    2  0.08
  19   10  0.38

ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21


Consensus pattern (19 bp):   
CAACTTGAAATGATCCAAA

Found at i:6025 original size:22 final size:22

Alignment explanation


    Indices: 5979--6025  Score: 58
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       5969 TTCTAACCTG

                             *    
       5979 AACTTAAAATGACTCGAGTCCA
          1 AACTTAAAATGACTCGAATCCA

                    *     *     * 
       6001 AACTTAAAGTGACTTGAATCTA
          1 AACTTAAAATGACTCGAATCCA

               
       6023 AAC
          1 AAC

       6026 ACTACTAATA


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  22   21  1.00

ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26


Consensus pattern (22 bp):   
AACTTAAAATGACTCGAATCCA
Done.