Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007829.1 Corchorus capsularis cultivar CVL-1 contig07850, 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: 11980
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30


Found at i:1014 original size:17 final size:17

Alignment explanation


    Indices: 994--1028  Score: 61
    Period size: 17  Copynumber: 2.1  Consensus size: 17

        984 CTCTAAAACG

                *            
        994 AAAATAAAAATAAAATA
          1 AAAAGAAAAATAAAATA

                             
       1011 AAAAGAAAAATAAAATA
          1 AAAAGAAAAATAAAATA

             
       1028 A
          1 A

       1029 CGAAAAAGAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   17  1.00

ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14


Consensus pattern (17 bp):   
AAAAGAAAAATAAAATA

Found at i:7401 original size:15 final size:15

Alignment explanation


    Indices: 7378--7409  Score: 55
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       7368 TAGGGTATGG

                           
       7378 CATACGTGGAAATGA
          1 CATACGTGGAAATGA

                *          
       7393 CATAGGTGGAAATGA
          1 CATACGTGGAAATGA

              
       7408 CA
          1 CA

       7410 AGTTTCGAGT


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19


Consensus pattern (15 bp):   
CATACGTGGAAATGA

Found at i:8866 original size:13 final size:13

Alignment explanation


    Indices: 8824--8868  Score: 56
    Period size: 12  Copynumber: 3.5  Consensus size: 13

       8814 TCATGCACCC

                        * 
       8824 AAAACAATTTATTT
          1 AAAACAATTTA-AT

                 *       
       8838 AAAACCATTT-AT
          1 AAAACAATTTAAT

                         
       8850 AAAACAATTTAAT
          1 AAAACAATTTAAT

                  
       8863 AAAACA
          1 AAAACA

       8869 GTAATAAAAT


Statistics
Matches: 27,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  12   10  0.37
  13    8  0.30
  14    9  0.33

ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31


Consensus pattern (13 bp):   
AAAACAATTTAAT
Done.