Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015960.1 Corchorus olitorius cultivar O-4 contig15993, 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: 8062
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33


Found at i:2874 original size:22 final size:22

Alignment explanation


    Indices: 2828--2874  Score: 53
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       2818 GCTTCTTTTT

                       *          
       2828 AGTCGACTATTTCTCTCCTTGA
          1 AGTCGACTATTGCTCTCCTTGA

                                    
       2850 AGTCGACTACTTGGCTC-CCTT-A
          1 AGTCGACTA-TT-GCTCTCCTTGA

               
       2872 AGT
          1 AGT

       2875 GGACAATTCC


Statistics
Matches: 22,  Mismatches: 1, Indels: 4
        0.81            0.04        0.15

Matches are distributed among these distances:
  22   13  0.59
  23    6  0.27
  24    3  0.14

ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36


Consensus pattern (22 bp):   
AGTCGACTATTGCTCTCCTTGA

Found at i:7124 original size:16 final size:15

Alignment explanation


    Indices: 7084--7125  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       7074 ACAGAGATTG

                   *       
       7084 ACAGAAACCAATTAA
          1 ACAGAAAACAATTAA

                           
       7099 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       7114 ACTAGAAAACAA
          1 AC-AGAAAACAA

       7126 AAGCGCAAAC


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.64, C:0.17, G:0.07, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA
Done.