Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012951.1 Corchorus capsularis cultivar CVL-1 contig12972, 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: 5491
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38


Found at i:2598 original size:3 final size:3

Alignment explanation


    Indices: 2590--2614  Score: 50
    Period size: 3  Copynumber: 8.3  Consensus size: 3

       2580 CCTCCCCTCC

                                             
       2590 CTT CTT CTT CTT CTT CTT CTT CTT C
          1 CTT CTT CTT CTT CTT CTT CTT CTT C

       2615 CCGTCTCTGT


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

Matches are distributed among these distances:
   3   22  1.00

ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64


Consensus pattern (3 bp):   
CTT

Found at i:3409 original size:11 final size:12

Alignment explanation


    Indices: 3382--3410  Score: 51
    Period size: 12  Copynumber: 2.5  Consensus size: 12

       3372 ATTTTTCATG

                        
       3382 TTGCATATAGTT
          1 TTGCATATAGTT

                        
       3394 TTGCATATAG-T
          1 TTGCATATAGTT

                  
       3405 TTGCAT
          1 TTGCAT

       3411 TGCATTGTAA


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

Matches are distributed among these distances:
  11    7  0.41
  12   10  0.59

ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48


Consensus pattern (12 bp):   
TTGCATATAGTT

Found at i:4949 original size:16 final size:17

Alignment explanation


    Indices: 4919--4953  Score: 54
    Period size: 16  Copynumber: 2.1  Consensus size: 17

       4909 TTTTTAAATT

                      *      
       4919 TTTTCCAAAATTTTTGC
          1 TTTTCCAAAACTTTTGC

                             
       4936 TTTT-CAAAACTTTTGC
          1 TTTTCCAAAACTTTTGC

              
       4952 TT
          1 TT

       4954 ATCTGGTTAA


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

Matches are distributed among these distances:
  16   13  0.76
  17    4  0.24

ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54


Consensus pattern (17 bp):   
TTTTCCAAAACTTTTGC
Done.