Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016854.1 Corchorus olitorius cultivar O-4 contig16887, 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: 5959
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36


Found at i:999 original size:15 final size:15

Alignment explanation


    Indices: 981--1010  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

        971 TGATATAAGT

                           
        981 TGTCCTGATGGTGTG
          1 TGTCCTGATGGTGTG

                           
        996 TGTCCTGATGGTGTG
          1 TGTCCTGATGGTGTG

       1011 CTATTTCTTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.07, C:0.13, G:0.40, T:0.40


Consensus pattern (15 bp):   
TGTCCTGATGGTGTG

Found at i:1190 original size:27 final size:27

Alignment explanation


    Indices: 1151--1224  Score: 94
    Period size: 27  Copynumber: 2.7  Consensus size: 27

       1141 ATCCAAATTG

                              *        
       1151 CTCATGACCATCGGGATCTAATTTCAT
          1 CTCATGACCATCGGGATCCAATTTCAT

                *   *           *   ** 
       1178 CTCACGACAATCGGGATCCAGTTTTGT
          1 CTCATGACCATCGGGATCCAATTTCAT

                                
       1205 CTCATGACCATCGGGATCCA
          1 CTCATGACCATCGGGATCCA

       1225 TAAAGGAAAC


Statistics
Matches: 39,  Mismatches: 8, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  27   39  1.00

ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28


Consensus pattern (27 bp):   
CTCATGACCATCGGGATCCAATTTCAT

Found at i:1870 original size:29 final size:29

Alignment explanation


    Indices: 1838--1895  Score: 71
    Period size: 29  Copynumber: 2.0  Consensus size: 29

       1828 TGATGTGGCA

                        * *      *       
       1838 AAAAATATAATAGATTGGGAATTAAGTTT
          1 AAAAATATAATACAATGGGAAATAAGTTT

                *   *                    
       1867 AAAACTATCATACAATGGGAAATAAGTTT
          1 AAAAATATAATACAATGGGAAATAAGTTT

       1896 TCAAAGTATT


Statistics
Matches: 24,  Mismatches: 5, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  29   24  1.00

ACGTcount: A:0.48, C:0.05, G:0.16, T:0.31


Consensus pattern (29 bp):   
AAAAATATAATACAATGGGAAATAAGTTT
Done.