Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010428.1 Corchorus olitorius cultivar O-4 contig10460, whole genome shotgun sequence

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: 9995
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37


Found at i:2108 original size:2 final size:2

Alignment explanation


    Indices: 2101--2137  Score: 74
    Period size: 2  Copynumber: 18.5  Consensus size: 2

       2091 TCTTTTTGTT

                                                                   
       2101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       2138 TCACGTGCGT


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   35  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:2215 original size:22 final size:23

Alignment explanation


    Indices: 2187--2249  Score: 74
    Period size: 22  Copynumber: 2.7  Consensus size: 23

       2177 TATATTTATG

                                  *
       2187 AAATTTTGATAACTACCCTAT-T
          1 AAATTTTGATAACTACCCTATAA

                         *  *       
       2209 AAATTTTGATAACCACGCTATGAA
          1 AAATTTTGATAACTACCCTAT-AA

                        *    
       2233 AAATTTTGATAATTACC
          1 AAATTTTGATAACTACC

       2250 TATGAGATTG


Statistics
Matches: 33,  Mismatches: 6, Indels: 2
        0.80            0.15        0.05

Matches are distributed among these distances:
  22   19  0.58
  24   14  0.42

ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37


Consensus pattern (23 bp):   
AAATTTTGATAACTACCCTATAA

Done.