Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019261.1 Corchorus olitorius cultivar O-4 contig19294, 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: 12034
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30


Found at i:5225 original size:22 final size:22

Alignment explanation


    Indices: 5178--5223  Score: 67
    Period size: 22  Copynumber: 2.1  Consensus size: 22

       5168 CTTGGTGGCA

                 *                
       5178 CCCGGACATGACTAGGCCATAG
          1 CCCGGTCATGACTAGGCCATAG

                         *        
       5200 CCCGGTCATGACTCGGCCAT-G
          1 CCCGGTCATGACTAGGCCATAG

               
       5221 CCC
          1 CCC

       5224 CGCGTCAGGC


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  21    4  0.18
  22   18  0.82

ACGTcount: A:0.20, C:0.39, G:0.26, T:0.15


Consensus pattern (22 bp):   
CCCGGTCATGACTAGGCCATAG

Found at i:5303 original size:22 final size:21

Alignment explanation


    Indices: 5278--5323  Score: 65
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       5268 GACACAGCTC

                 *                
       5278 GGCAATCACCAAGCCATGCCGA
          1 GGCAAGCACC-AGCCATGCCGA

                *                
       5300 GGCAGGCACCAGCCATGCCGA
          1 GGCAAGCACCAGCCATGCCGA

               
       5321 GGC
          1 GGC

       5324 CATGGCCCGG


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  21   14  0.64
  22    8  0.36

ACGTcount: A:0.26, C:0.37, G:0.30, T:0.07


Consensus pattern (21 bp):   
GGCAAGCACCAGCCATGCCGA

Found at i:6041 original size:21 final size:21

Alignment explanation


    Indices: 5998--6041  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       5988 CCAATTTAGG

                     *     *     
       5998 TTTAGATTTCAATTTCTTGTT
          1 TTTAGATTTAAATTTATTGTT

                                  
       6019 TTTAGATTTAAGATTTATT-TT
          1 TTTAGATTTAA-ATTTATTGTT

              
       6040 TT
          1 TT

       6042 ATGCATCTTA


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  21   14  0.70
  22    6  0.30

ACGTcount: A:0.23, C:0.05, G:0.09, T:0.64


Consensus pattern (21 bp):   
TTTAGATTTAAATTTATTGTT
Done.