Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01016017.1 Corchorus capsularis cultivar CVL-1 contig16038, 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: 17375
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34


Found at i:994 original size:1 final size:1

Alignment explanation


    Indices: 988--1018  Score: 53
    Period size: 1  Copynumber: 31.0  Consensus size: 1

        978 TTGGGTTCAC

                                      *    
        988 TTTTTTTTTTTTTTTTTTTTTTTTTTGTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

       1019 ATATTTGCTG


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   1   28  1.00

ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97


Consensus pattern (1 bp):   
T

Found at i:7757 original size:2 final size:2

Alignment explanation


    Indices: 7750--7781  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       7740 GCCTTTTTCC

                                                           
       7750 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

       7782 CTAGAGATGT


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:17340 original size:2 final size:2

Alignment explanation


    Indices: 17335--17375  Score: 82
    Period size: 2  Copynumber: 20.5  Consensus size: 2

      17325 TGTGTGTGTG

                                                                         
      17335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T


Statistics
Matches: 39,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   39  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Done.