Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021223.1 Corchorus olitorius cultivar O-4 contig21256, 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: 2816
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29


Found at i:1306 original size:21 final size:21

Alignment explanation


    Indices: 1280--1328  Score: 80
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       1270 GGAAGTCGAG

                       *         
       1280 CGTGAACAACCGCCGCGTCTC
          1 CGTGAACAACCCCCGCGTCTC

                                 
       1301 CGTGAACAACCCCCGCGTCTC
          1 CGTGAACAACCCCCGCGTCTC

             *     
       1322 CTTGAAC
          1 CGTGAAC

       1329 TACGTGCCGC


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  21   26  1.00

ACGTcount: A:0.20, C:0.43, G:0.20, T:0.16


Consensus pattern (21 bp):   
CGTGAACAACCCCCGCGTCTC

Found at i:2314 original size:13 final size:13

Alignment explanation


    Indices: 2281--2333  Score: 60
    Period size: 12  Copynumber: 4.4  Consensus size: 13

       2271 GCACCCAAAA

                        *
       2281 CATTTAT-TAAAA
          1 CATTTATATAAAG

                         
       2293 CATTT-TATAAAG
          1 CATTTATATAAAG

                         
       2305 CATTTATATAAAG
          1 CATTTATATAAAG

              *          
       2318 CAGTTATA-AAA-
          1 CATTTATATAAAG

                 
       2329 CATTT
          1 CATTT

       2334 CCTCAACGGG


Statistics
Matches: 36,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  11    5  0.14
  12   17  0.47
  13   14  0.39

ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40


Consensus pattern (13 bp):   
CATTTATATAAAG
Done.