Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012651.1 Corchorus capsularis cultivar CVL-1 contig12672, 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: 14345
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35


Found at i:248 original size:14 final size:15

Alignment explanation


    Indices: 229--266  Score: 51
    Period size: 14  Copynumber: 2.5  Consensus size: 15

        219 AGCGGGTCTC

                           
        229 TCTTTTTTTTCTT-T
          1 TCTTTTTTTTCTTGT

                  *        
        243 TCTTTTCTTTCTTGT
          1 TCTTTTTTTTCTTGT

                     
        258 TCTTCTTTT
          1 TCTT-TTTT

        267 AATTTTTTTT


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  14   12  0.60
  15    5  0.25
  16    3  0.15

ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79


Consensus pattern (15 bp):   
TCTTTTTTTTCTTGT

Found at i:5477 original size:2 final size:2

Alignment explanation


    Indices: 5429--5460  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       5419 ACACAACAAC

                                                           
       5429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       5461 CGAATTAGAA


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:7457 original size:63 final size:64

Alignment explanation


    Indices: 7378--7500  Score: 196
    Period size: 63  Copynumber: 1.9  Consensus size: 64

       7368 TGAATCTATA

                               *     *                                       
       7378 CTAATGACAACAATTTCATGACAACGTAGATGAATCTAAAGT-ATACTT-AAAATTTTGCTGATC
          1 CTAATGACAACAATTTCATCACAACATAGATGAATCTAAAGTGATA-TTAAAAATTTTGCTGATC

                      *                                                 
       7441 CTAATGACAAGAATTTCATCACAACATAGATGAATCTAAAGTGATATTAAAAATTTTGCT
          1 CTAATGACAACAATTTCATCACAACATAGATGAATCTAAAGTGATATTAAAAATTTTGCT

       7501 AGAAACAGGA


Statistics
Matches: 55,  Mismatches: 3, Indels: 3
        0.90            0.05        0.05

Matches are distributed among these distances:
  63   41  0.75
  64   14  0.25

ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32


Consensus pattern (64 bp):   
CTAATGACAACAATTTCATCACAACATAGATGAATCTAAAGTGATATTAAAAATTTTGCTGATC
Done.