Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009029.1 Corchorus capsularis cultivar CVL-1 contig09050, 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: 6706
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29


Found at i:1085 original size:25 final size:25

Alignment explanation


    Indices: 1040--1087  Score: 69
    Period size: 25  Copynumber: 1.9  Consensus size: 25

       1030 TGATACGCTT

                      *              
       1040 AACCATGTACTACAAACCTTATCCA
          1 AACCATGTACCACAAACCTTATCCA

                         *  *      
       1065 AACCATGTACCACCAAGCTTATC
          1 AACCATGTACCACAAACCTTATC

       1088 TATTGCACCA


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  25   20  1.00

ACGTcount: A:0.38, C:0.33, G:0.06, T:0.23


Consensus pattern (25 bp):   
AACCATGTACCACAAACCTTATCCA

Found at i:1689 original size:13 final size:13

Alignment explanation


    Indices: 1671--1697  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

       1661 CAAGTAGCCG

                         
       1671 AAAACTTCATTAT
          1 AAAACTTCATTAT

                         
       1684 AAAACTTCATTAT
          1 AAAACTTCATTAT

             
       1697 A
          1 A

       1698 TCATGCAACT


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:0.48, C:0.15, G:0.00, T:0.37


Consensus pattern (13 bp):   
AAAACTTCATTAT

Found at i:3608 original size:16 final size:16

Alignment explanation


    Indices: 3587--3617  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       3577 TCAAGGATCA

                     *      
       3587 AAACAAAATTAAGTTG
          1 AAACAAAATGAAGTTG

                           
       3603 AAACAAAATGAAGTT
          1 AAACAAAATGAAGTT

       3618 AGTATTAAAA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23


Consensus pattern (16 bp):   
AAACAAAATGAAGTTG
Done.