Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012971.1 Corchorus capsularis cultivar CVL-1 contig12992, 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, 876

Length: 1461
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31


Found at i:806 original size:17 final size:17

Alignment explanation


    Indices: 783--816  Score: 50
    Period size: 17  Copynumber: 1.9  Consensus size: 17

        773 TGGTCGAAAT

                      *       
        783 TTTTTTTATTTTATTTTA
          1 TTTTTTT-TTATATTTTA

                            
        801 TTTTTTTTTATATTTT
          1 TTTTTTTTTATATTTT

        817 TCGATATAAC


Statistics
Matches: 15,  Mismatches: 1, Indels: 1
        0.88            0.06        0.06

Matches are distributed among these distances:
  17    8  0.53
  18    7  0.47

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (17 bp):   
TTTTTTTTTATATTTTA

Found at i:809 original size:10 final size:10

Alignment explanation


    Indices: 782--817  Score: 54
    Period size: 10  Copynumber: 3.5  Consensus size: 10

        772 CTGGTCGAAA

                      
        782 TTTTTTTTAT
          1 TTTTTTTTAT

               *      
        792 TTTATTTTAT
          1 TTTTTTTTAT

                      
        802 TTTTTTTTAT
          1 TTTTTTTTAT

                  
        812 ATTTTT
          1 -TTTTT

        818 CGATATAACT


Statistics
Matches: 23,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  10   18  0.78
  11    5  0.22

ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86


Consensus pattern (10 bp):   
TTTTTTTTAT

Found at i:918 original size:8 final size:8

Alignment explanation


    Indices: 890--923  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

        880 AAATCGGCTA

                    
        890 TGAATTTT
          1 TGAATTTT

                    *
        898 TGAAGTTTC
          1 TGAA-TTTT

                    
        907 TGAATTTT
          1 TGAATTTT

                    
        915 TGAATTTT
          1 TGAATTTT

             
        923 T
          1 T

        924 CAAGAAGGTG


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59


Consensus pattern (8 bp):   
TGAATTTT
Done.