Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010715.1 Corchorus capsularis cultivar CVL-1 contig10736, 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: 12936
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35


Found at i:2545 original size:24 final size:19

Alignment explanation


    Indices: 2497--2537  Score: 82
    Period size: 19  Copynumber: 2.2  Consensus size: 19

       2487 AGTTCTTAAA

                               
       2497 ATTTTAATTTGGGAGTTGT
          1 ATTTTAATTTGGGAGTTGT

                               
       2516 ATTTTAATTTGGGAGTTGT
          1 ATTTTAATTTGGGAGTTGT

               
       2535 ATT
          1 ATT

       2538 GAGTTTTACC


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   22  1.00

ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54


Consensus pattern (19 bp):   
ATTTTAATTTGGGAGTTGT

Found at i:7844 original size:99 final size:97

Alignment explanation


    Indices: 7686--7878  Score: 255
    Period size: 99  Copynumber: 2.0  Consensus size: 97

       7676 CAACTAAGTA

                      *                     *            *                   
       7686 ACTTTAATCGGAATTATTATTTGAATGTAATGTATGTATATATAATAGTGAGGAGTTATTGAAA-
          1 ACTTTAATCGCAATTATTATTTGAATGTAATGAATGTATATATAACAGTGAGGAGTTATTGAAAG

                             *               
       7750 TGATAAAAAGAATTAAATACCCAATTGTAACTC
         66 T-ATAAAAAGAATTAAAGACCCAATTGTAACTC

                    *                 *                     *                
       7783 ACTTTAATTGCAATTATTATTTGAATTTGAATGCAATGTATATATAACGGTGAGGTA-TTATTGA
          1 ACTTTAATCGCAATTATTATTTGAATGT-AATG-AATGTATATATAACAGTGAGG-AGTTATTGA

                        *        *          
       7847 AAGTATAAAAAGGATTAAAGATCCAATTGTAA
         63 AAGTATAAAAAGAATTAAAGACCCAATTGTAA

       7879 GTTGTAACTC


Statistics
Matches: 83,  Mismatches: 9, Indels: 6
        0.85            0.09        0.06

Matches are distributed among these distances:
  97   25  0.30
  98    4  0.05
  99   52  0.63
 100    2  0.02

ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36


Consensus pattern (97 bp):   
ACTTTAATCGCAATTATTATTTGAATGTAATGAATGTATATATAACAGTGAGGAGTTATTGAAAG
TATAAAAAGAATTAAAGACCCAATTGTAACTC
Done.