Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008663.1 Corchorus capsularis cultivar CVL-1 contig08684, 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: 7637
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35


Found at i:443 original size:100 final size:100

Alignment explanation


    Indices: 270--467  Score: 369
    Period size: 100  Copynumber: 2.0  Consensus size: 100

        260 GTATCTATAT

                                                                *            
        270 TAATTATAATATGAAGTCCTGAATTTGTGTCACGAGTTAACTCGGATACAAATTCAGTTTTTAAA
          1 TAATTATAATATGAAGTCCTGAATTTGTGTCACGAGTTAACTCGGATACAAACTCAGTTTTTAAA

                                               
        335 AGATTAAAAACTATCCATTTCAAACTAAACCATAC
         66 AGATTAAAAACTATCCATTTCAAACTAAACCATAC

                      *           *                                          
        370 TAATTATAATGTGAAGTCCTGAGTTTGTGTCACGAGTTAACTCGGATACAAACTCAGTTTTTAAA
          1 TAATTATAATATGAAGTCCTGAATTTGTGTCACGAGTTAACTCGGATACAAACTCAGTTTTTAAA

                                             
        435 AGATTAAAAACTATCCATTTCAAACTAAACCAT
         66 AGATTAAAAACTATCCATTTCAAACTAAACCAT

        468 CAAAGATATT


Statistics
Matches: 95,  Mismatches: 3, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
 100   95  1.00

ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33


Consensus pattern (100 bp):   
TAATTATAATATGAAGTCCTGAATTTGTGTCACGAGTTAACTCGGATACAAACTCAGTTTTTAAA
AGATTAAAAACTATCCATTTCAAACTAAACCATAC

Found at i:764 original size:10 final size:10

Alignment explanation


    Indices: 749--774  Score: 52
    Period size: 10  Copynumber: 2.6  Consensus size: 10

        739 TCAAAAAAGA

                      
        749 AAACTATTAT
          1 AAACTATTAT

                      
        759 AAACTATTAT
          1 AAACTATTAT

                  
        769 AAACTA
          1 AAACTA

        775 CCTTTTTATT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   16  1.00

ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35


Consensus pattern (10 bp):   
AAACTATTAT
Done.