Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014814.1 Corchorus capsularis cultivar CVL-1 contig14835, 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: 5354
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:3761 original size:8 final size:8

Alignment explanation


    Indices: 3750--3783  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

       3740 TTGAAAAAAA

                    
       3750 AAAAATTC
          1 AAAAATTC

                    
       3758 AAAAATTC
          1 AAAAATTC

                 *   
       3766 AGAAACTTC
          1 A-AAAATTC

                    
       3775 AAAAATTC
          1 AAAAATTC

             
       3783 A
          1 A

       3784 TAGTCGATTC


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


Consensus pattern (8 bp):   
AAAAATTC

Found at i:5302 original size:33 final size:33

Alignment explanation


    Indices: 5257--5354  Score: 144
    Period size: 33  Copynumber: 3.0  Consensus size: 33

       5247 GAAAAGAGTG

                                              
       5257 TTTTAGATGTTGTTTGCAATGATACTAAACCTAA
          1 TTTTAGATGTTGTTTGCAATGATACTAAACCT-A

                                  *      *  *
       5291 TTTTAG-TGTTGTTTGCAATGACACTAAATCTG
          1 TTTTAGATGTTGTTTGCAATGATACTAAACCTA

                             *              
       5323 TTTTAGATGTTGTTTGCGATGATACTAAACCT
          1 TTTTAGATGTTGTTTGCAATGATACTAAACCT


Statistics
Matches: 57,  Mismatches: 6, Indels: 3
        0.86            0.09        0.05

Matches are distributed among these distances:
  32    6  0.11
  33   45  0.79
  34    6  0.11

ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43


Consensus pattern (33 bp):   
TTTTAGATGTTGTTTGCAATGATACTAAACCTA
Done.