Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021933.1 Corchorus olitorius cultivar O-4 contig21966, 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: 8020
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:1000 original size:33 final size:33

Alignment explanation


    Indices: 963--1028  Score: 132
    Period size: 33  Copynumber: 2.0  Consensus size: 33

        953 AAAATTGGGG

                                             
        963 AAATAAGATCAATCAAAAACAATCAAATTCTAT
          1 AAATAAGATCAATCAAAAACAATCAAATTCTAT

                                             
        996 AAATAAGATCAATCAAAAACAATCAAATTCTAT
          1 AAATAAGATCAATCAAAAACAATCAAATTCTAT

       1029 CCTAGGTTCT


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  33   33  1.00

ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24


Consensus pattern (33 bp):   
AAATAAGATCAATCAAAAACAATCAAATTCTAT

Found at i:6692 original size:19 final size:18

Alignment explanation


    Indices: 6659--6694  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       6649 TTGAAATTAT

                              
       6659 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       6677 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       6695 TAAGTCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA

Found at i:7158 original size:15 final size:15

Alignment explanation


    Indices: 7140--7168  Score: 51
    Period size: 14  Copynumber: 2.0  Consensus size: 15

       7130 TTTTCTGAAA

                           
       7140 TTTTTTT-TTTTTAC
          1 TTTTTTTATTTTTAC

                           
       7154 TTTTTTTATTTTTAC
          1 TTTTTTTATTTTTAC

       7169 CTTCTTCTAT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    7  0.50
  15    7  0.50

ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83


Consensus pattern (15 bp):   
TTTTTTTATTTTTAC
Done.