Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001226.1 Corchorus capsularis cultivar CVL-1 contig01226, 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: 11151
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31


Found at i:5140 original size:24 final size:24

Alignment explanation


    Indices: 5108--5158  Score: 93
    Period size: 24  Copynumber: 2.1  Consensus size: 24

       5098 TCACTCTCTC

                       *            
       5108 AATAATGCTTTTTAAGGATTTGGA
          1 AATAATGCTTTCTAAGGATTTGGA

                                    
       5132 AATAATGCTTTCTAAGGATTTGGA
          1 AATAATGCTTTCTAAGGATTTGGA

               
       5156 AAT
          1 AAT

       5159 TGCAAGTCAC


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  24   26  1.00

ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39


Consensus pattern (24 bp):   
AATAATGCTTTCTAAGGATTTGGA

Found at i:10144 original size:21 final size:21

Alignment explanation


    Indices: 10111--10150  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

      10101 TTCTTTCTTG

                    *            
      10111 TTTTCCTTTTCTTTCTTGCGC
          1 TTTTCCTTGTCTTTCTTGCGC

                *              
      10132 TTTTTCTTGTCTTTCTTGC
          1 TTTTCCTTGTCTTTCTTGC

      10151 TCTCTTTGGG


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.00, C:0.25, G:0.10, T:0.65


Consensus pattern (21 bp):   
TTTTCCTTGTCTTTCTTGCGC

Found at i:10604 original size:1 final size:1

Alignment explanation


    Indices: 10600--10626  Score: 54
    Period size: 1  Copynumber: 27.0  Consensus size: 1

      10590 ATTTTTGTGC

                                       
      10600 AAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAA

      10627 CTCTTCTCTT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   26  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Done.