Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008687.1 Corchorus capsularis cultivar CVL-1 contig08708, 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: 1844
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35


Found at i:991 original size:23 final size:23

Alignment explanation


    Indices: 931--992  Score: 83
    Period size: 22  Copynumber: 2.7  Consensus size: 23

        921 TTTTTTCTAA

                                   
        931 AAAAAAAAAAG-TTTGCGTCGAT
          1 AAAAAAAAAAGTTTTGCGTCGAT

                                      
        953 AAAAAAAAAATTGTTTCTGCGTCGAT
          1 AAAAAAAAAA--GTTT-TGCGTCGAT

                           
        979 -AAAAAAAAAGTTTT
          1 AAAAAAAAAAGTTTT

        993 TTCCGTTTTT


Statistics
Matches: 36,  Mismatches: 0, Indels: 8
        0.82            0.00        0.18

Matches are distributed among these distances:
  22   11  0.31
  23    4  0.11
  24    1  0.03
  25   11  0.31
  26    9  0.25

ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27


Consensus pattern (23 bp):   
AAAAAAAAAAGTTTTGCGTCGAT

Found at i:995 original size:26 final size:26

Alignment explanation


    Indices: 928--987  Score: 88
    Period size: 26  Copynumber: 2.4  Consensus size: 26

        918 CCGTTTTTTC

                       **             
        928 TAAAAAAAAAAAAG-TT-TGCGTCGA
          1 TAAAAAAAAAATTGTTTCTGCGTCGA

                                      
        952 TAAAAAAAAAATTGTTTCTGCGTCGA
          1 TAAAAAAAAAATTGTTTCTGCGTCGA

                      
        978 TAAAAAAAAA
          1 TAAAAAAAAA

        988 GTTTTTTCCG


Statistics
Matches: 32,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
  24   12  0.38
  25    2  0.06
  26   18  0.56

ACGTcount: A:0.55, C:0.08, G:0.13, T:0.23


Consensus pattern (26 bp):   
TAAAAAAAAAATTGTTTCTGCGTCGA

Found at i:1062 original size:37 final size:38

Alignment explanation


    Indices: 979--1048  Score: 103
    Period size: 36  Copynumber: 1.9  Consensus size: 38

        969 CTGCGTCGAT

                     *                            
        979 AAAAAAAAAGTT--TTTTCCGTTTTTCCGATTTTTCTA
          1 AAAAAAAAAATTAATTTTCCGTTTTTCCGATTTTTCTA

                                                
       1015 AAAAAAAAAATTAATTTTCC-TTTTTCCG-TTTTTC
          1 AAAAAAAAAATTAATTTTCCGTTTTTCCGATTTTTC

       1049 CTTTTAAAAA


Statistics
Matches: 31,  Mismatches: 1, Indels: 4
        0.86            0.03        0.11

Matches are distributed among these distances:
  36   17  0.55
  37    8  0.26
  38    6  0.19

ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47


Consensus pattern (38 bp):   
AAAAAAAAAATTAATTTTCCGTTTTTCCGATTTTTCTA
Done.