Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003811.1 Corchorus capsularis cultivar CVL-1 contig03819, 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: 8398
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32


Found at i:41 original size:16 final size:17

Alignment explanation


    Indices: 10--44  Score: 54
    Period size: 16  Copynumber: 2.1  Consensus size: 17

          1 AAAGTTATC

                             
         10 TAACTTAGAAACAATGT
          1 TAACTTAGAAACAATGT

                     *       
         27 TAACTT-GAGACAATGT
          1 TAACTTAGAAACAATGT

              
         43 TA
          1 TA

         45 TTGTTTATTA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  16   11  0.65
  17    6  0.35

ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31


Consensus pattern (17 bp):   
TAACTTAGAAACAATGT

Found at i:789 original size:10 final size:10

Alignment explanation


    Indices: 776--826  Score: 50
    Period size: 10  Copynumber: 5.1  Consensus size: 10

        766 GGTGTTATAT

                      
        776 TTGTGAATTA
          1 TTGTGAATTA

                  * * 
        786 TTGTG-CTAA
          1 TTGTGAATTA

                *     
        795 TTGTTAATTA
          1 TTGTGAATTA

                      *
        805 TTTGTGAATTT
          1 -TTGTGAATTA

                      
        816 TTGTGAATTA
          1 TTGTGAATTA

             
        826 T
          1 T

        827 ATTTGTTAGA


Statistics
Matches: 31,  Mismatches: 8, Indels: 4
        0.72            0.19        0.09

Matches are distributed among these distances:
   9    6  0.19
  10   17  0.55
  11    8  0.26

ACGTcount: A:0.25, C:0.02, G:0.18, T:0.55


Consensus pattern (10 bp):   
TTGTGAATTA

Found at i:7703 original size:13 final size:13

Alignment explanation


    Indices: 7687--7713  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

       7677 CTATATTTAA

                         
       7687 ATATTTAATCATT
          1 ATATTTAATCATT

                         
       7700 ATATTTAATCATT
          1 ATATTTAATCATT

             
       7713 A
          1 A

       7714 AAAAAACTCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   14  1.00

ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52


Consensus pattern (13 bp):   
ATATTTAATCATT
Done.