Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015796.1 Corchorus capsularis cultivar CVL-1 contig15817, 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: 7750
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31


Found at i:2292 original size:21 final size:21

Alignment explanation


    Indices: 2268--2316  Score: 71
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       2258 CAGCTGGGGG

                            *   *
       2268 CCCATGTGGTATGCCTGGCGC
          1 CCCATGTGGTATGCCTCGCGA

                      *          
       2289 CCCATGTGGTTTGCCTCGCGA
          1 CCCATGTGGTATGCCTCGCGA

                   
       2310 CCCATGT
          1 CCCATGT

       2317 CCTCCAGTGC


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   25  1.00

ACGTcount: A:0.10, C:0.35, G:0.29, T:0.27


Consensus pattern (21 bp):   
CCCATGTGGTATGCCTCGCGA

Found at i:3462 original size:91 final size:91

Alignment explanation


    Indices: 3307--3488  Score: 355
    Period size: 91  Copynumber: 2.0  Consensus size: 91

       3297 TTCCGCTTTC

                                                                             
       3307 CATGCCTCTTATCCTCTTTCCAAGGGTTACTAACTCCTTTTGTTAAAGAAAATAGTGACAACAAT
          1 CATGCCTCTTATCCTCTTTCCAAGGGTTACTAACTCCTTTTGTTAAAGAAAATAGTGACAACAAT

                                      
       3372 GGATAAATTAATTAATTAATTAATTT
         66 GGATAAATTAATTAATTAATTAATTT

                                                                             
       3398 CATGCCTCTTATCCTCTTTCCAAGGGTTACTAACTCCTTTTGTTAAAGAAAATAGTGACAACAAT
          1 CATGCCTCTTATCCTCTTTCCAAGGGTTACTAACTCCTTTTGTTAAAGAAAATAGTGACAACAAT

                 *                    
       3463 GGATATATTAATTAATTAATTAATTT
         66 GGATAAATTAATTAATTAATTAATTT

       3489 TTTTTTATTA


Statistics
Matches: 90,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  91   90  1.00

ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38


Consensus pattern (91 bp):   
CATGCCTCTTATCCTCTTTCCAAGGGTTACTAACTCCTTTTGTTAAAGAAAATAGTGACAACAAT
GGATAAATTAATTAATTAATTAATTT

Found at i:5947 original size:13 final size:13

Alignment explanation


    Indices: 5926--5955  Score: 51
    Period size: 13  Copynumber: 2.3  Consensus size: 13

       5916 GGTGAGTACG

                *        
       5926 GCATGGCATGGGT
          1 GCATAGCATGGGT

                         
       5939 GCATAGCATGGGT
          1 GCATAGCATGGGT

                
       5952 GCAT
          1 GCAT

       5956 GGGTGTTGGC


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  13   16  1.00

ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23


Consensus pattern (13 bp):   
GCATAGCATGGGT
Done.