Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004812.1 Corchorus olitorius cultivar O-4 contig04829, 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, 675

Length: 1125
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21


Found at i:306 original size:7 final size:7

Alignment explanation


    Indices: 294--375  Score: 164
    Period size: 7  Copynumber: 11.7  Consensus size: 7

        284 TTATCCTTCC

                   
        294 AAAACGG
          1 AAAACGG

                   
        301 AAAACGG
          1 AAAACGG

                   
        308 AAAACGG
          1 AAAACGG

                   
        315 AAAACGG
          1 AAAACGG

                   
        322 AAAACGG
          1 AAAACGG

                   
        329 AAAACGG
          1 AAAACGG

                   
        336 AAAACGG
          1 AAAACGG

                   
        343 AAAACGG
          1 AAAACGG

                   
        350 AAAACGG
          1 AAAACGG

                   
        357 AAAACGG
          1 AAAACGG

                   
        364 AAAACGG
          1 AAAACGG

                 
        371 AAAAC
          1 AAAAC

        376 TCAAAACTCA


Statistics
Matches: 75,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   75  1.00

ACGTcount: A:0.59, C:0.15, G:0.27, T:0.00


Consensus pattern (7 bp):   
AAAACGG

Found at i:381 original size:7 final size:7

Alignment explanation


    Indices: 371--418  Score: 87
    Period size: 7  Copynumber: 6.7  Consensus size: 7

        361 CGGAAAACGG

                   
        371 AAAACTC
          1 AAAACTC

                   
        378 AAAACTC
          1 AAAACTC

                   
        385 AAAACTC
          1 AAAACTC

                   
        392 AAAACTC
          1 AAAACTC

                   
        399 AAAACTC
          1 AAAACTC

                    
        406 AAAAACTC
          1 -AAAACTC

                 
        414 AAAAC
          1 AAAAC

        419 CGCAGCGGCG


Statistics
Matches: 40,  Mismatches: 0, Indels: 2
        0.95            0.00        0.05

Matches are distributed among these distances:
   7   33  0.82
   8    7  0.17

ACGTcount: A:0.60, C:0.27, G:0.00, T:0.12


Consensus pattern (7 bp):   
AAAACTC

Done.