Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012456.1 Corchorus capsularis cultivar CVL-1 contig12477, 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: 17352
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32


Found at i:937 original size:2 final size:2

Alignment explanation


    Indices: 930--957  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

        920 AAATTAATAG

                                                     
        930 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA

        958 GTGGATCATC


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:2125 original size:16 final size:16

Alignment explanation


    Indices: 2104--2136  Score: 57
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       2094 GAACCACTTA

                            
       2104 AACTAACCACCGGTTG
          1 AACTAACCACCGGTTG

                       *    
       2120 AACTAACCACCTGTTG
          1 AACTAACCACCGGTTG

             
       2136 A
          1 A

       2137 TAGAAATACA


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

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21


Consensus pattern (16 bp):   
AACTAACCACCGGTTG

Found at i:7966 original size:2 final size:2

Alignment explanation


    Indices: 7959--8010  Score: 63
    Period size: 2  Copynumber: 26.0  Consensus size: 2

       7949 TACTAATGAA

                                                                *           
       7959 AT AT AT AT AT AT AT AT AT AT AT GA- AT AT AT AT AT GT -T CAT AT
          1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT -AT AT

                          
       8001 AT AT AT AT AT
          1 AT AT AT AT AT

       8011 GAATATAATT


Statistics
Matches: 45,  Mismatches: 1, Indels: 8
        0.83            0.02        0.15

Matches are distributed among these distances:
   1    2  0.04
   2   41  0.91
   3    2  0.04

ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48


Consensus pattern (2 bp):   
AT

Done.