Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021617.1 Corchorus olitorius cultivar O-4 contig21650, 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: 1679
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.33


Found at i:1055 original size:66 final size:65

Alignment explanation


    Indices: 939--1064  Score: 182
    Period size: 66  Copynumber: 1.9  Consensus size: 65

        929 AGTAATTCTG

                 *                                                           
        939 AACCTGATTTAGTGTTGTTTGCAATGACATGAAATCTGTTTTAGATGTTGTTAGTGATGATACTA
          1 AACCTAATTTAGTGTTGTTTGCAATGACATGAAATCTGTTTTAGATGTTGTTAGTGATGATACTA

                                  **                      *       *       
       1004 AACCTAATTTGAGTGTTGTTTGTGATGACACT-AAATCTGTTTTAGGTGTTGTTTGTGATGA
          1 AACCTAATTT-AGTGTTGTTTGCAATGACA-TGAAATCTGTTTTAGATGTTGTTAGTGATGA

       1065 AACAAATTCT


Statistics
Matches: 54,  Mismatches: 5, Indels: 3
        0.87            0.08        0.05

Matches are distributed among these distances:
  65    9  0.17
  66   44  0.81
  67    1  0.02

ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43


Consensus pattern (65 bp):   
AACCTAATTTAGTGTTGTTTGCAATGACATGAAATCTGTTTTAGATGTTGTTAGTGATGATACTA

Found at i:1076 original size:33 final size:32

Alignment explanation


    Indices: 970--1115  Score: 134
    Period size: 33  Copynumber: 4.4  Consensus size: 32

        960 CAATGACATG

                         *       *       *   
        970 AAATCTGTTTTAGATGTTGTTAGTGATGATACT
          1 AAATCTGTTTT-GGTGTTGTTTGTGATGAAACT

               *  **                     *   
       1003 AAACCTAATTTGAGTGTTGTTTGTGATGACACT
          1 AAATCTGTTTTG-GTGTTGTTTGTGATGAAACT

                                             
       1036 AAATCTGTTTTAGGTGTTGTTTGTGATGAAAC-
          1 AAATCTGTTTT-GGTGTTGTTTGTGATGAAACT

                             * **              
       1068 AAATTCTGTTTTGGATGCTAATTGTGATGAAAAC-
          1 AAA-TCTGTTTTGG-TGTTGTTTGTGATG-AAACT

                          
       1102 AAATCTGTTTTGGT
          1 AAATCTGTTTTGGT

       1116 TGATCATAGC


Statistics
Matches: 95,  Mismatches: 13, Indels: 11
        0.80            0.11        0.09

Matches are distributed among these distances:
  32    7  0.07
  33   80  0.84
  34    8  0.08

ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42


Consensus pattern (32 bp):   
AAATCTGTTTTGGTGTTGTTTGTGATGAAACT
Done.