Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016699.1 Corchorus olitorius cultivar O-4 contig16732, 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: 6740
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31


Found at i:167 original size:17 final size:17

Alignment explanation


    Indices: 145--180  Score: 72
    Period size: 17  Copynumber: 2.1  Consensus size: 17

        135 CGACAATAAC

                             
        145 ATCTTATTACTAATTAA
          1 ATCTTATTACTAATTAA

                             
        162 ATCTTATTACTAATTAA
          1 ATCTTATTACTAATTAA

              
        179 AT
          1 AT

        181 TCCCTCAAGT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   19  1.00

ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47


Consensus pattern (17 bp):   
ATCTTATTACTAATTAA

Found at i:1036 original size:23 final size:23

Alignment explanation


    Indices: 983--1028  Score: 92
    Period size: 23  Copynumber: 2.0  Consensus size: 23

        973 AACATGATGC

                                   
        983 TACTATTAGAATGACCACAAACA
          1 TACTATTAGAATGACCACAAACA

                                   
       1006 TACTATTAGAATGACCACAAACA
          1 TACTATTAGAATGACCACAAACA

       1029 CTTCATTAAC


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

Matches are distributed among these distances:
  23   23  1.00

ACGTcount: A:0.48, C:0.22, G:0.09, T:0.22


Consensus pattern (23 bp):   
TACTATTAGAATGACCACAAACA

Found at i:2132 original size:27 final size:27

Alignment explanation


    Indices: 2094--2150  Score: 96
    Period size: 27  Copynumber: 2.1  Consensus size: 27

       2084 ATGATTACAA

                *                      
       2094 TTTCTGAGTATAAACTATCAAACTTTT
          1 TTTCGGAGTATAAACTATCAAACTTTT

                                 *     
       2121 TTTCGGAGTATAAACTATCAAGCTTTT
          1 TTTCGGAGTATAAACTATCAAACTTTT

               
       2148 TTT
          1 TTT

       2151 GGCCGAAAAA


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  27   28  1.00

ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46


Consensus pattern (27 bp):   
TTTCGGAGTATAAACTATCAAACTTTT
Done.