Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006724.1 Corchorus capsularis cultivar CVL-1 contig06745, 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: 5327
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32


Found at i:1087 original size:33 final size:32

Alignment explanation


    Indices: 990--1094  Score: 120
    Period size: 33  Copynumber: 3.2  Consensus size: 32

        980 TTGCAAAGAG

                                           * 
        990 TGTTTTAGATGTTGTTTGCGATGATACTAAACC
          1 TGTTTTAG-TGTTGTTTGCGATGATACTAAATC

              *   *            *    *        
       1023 TAATTTGAGTGTTGTTTGCAATGACACTAAATC
          1 T-GTTTTAGTGTTGTTTGCGATGATACTAAATC

                           *  *              
       1056 TGTTTTAAGTGTTGTATGTGATGATACTAAATC
          1 TGTTTT-AGTGTTGTTTGCGATGATACTAAATC

                  
       1089 TGTTTT
          1 TGTTTT

       1095 GGATGCTAAT


Statistics
Matches: 59,  Mismatches: 11, Indels: 4
        0.80            0.15        0.05

Matches are distributed among these distances:
  32    3  0.05
  33   51  0.86
  34    5  0.08

ACGTcount: A:0.26, C:0.10, G:0.20, T:0.45


Consensus pattern (32 bp):   
TGTTTTAGTGTTGTTTGCGATGATACTAAATC

Found at i:1157 original size:33 final size:33

Alignment explanation


    Indices: 1120--1228  Score: 200
    Period size: 33  Copynumber: 3.3  Consensus size: 33

       1110 TGAAAACAAA

                                        *    
       1120 TCTGTTTTGGTTGATCATAGCATTGCAAGTAAT
          1 TCTGTTTTGGTTGATCATAGCATTGCAAATAAT

                                             
       1153 TCTGTTTTGGTTGATCATAGCATTGCAAATAAT
          1 TCTGTTTTGGTTGATCATAGCATTGCAAATAAT

                *                            
       1186 TCTGGTTTGGTTGATCATAGCATTGCAAATAAT
          1 TCTGTTTTGGTTGATCATAGCATTGCAAATAAT

                      
       1219 TCTGTTTTGG
          1 TCTGTTTTGG

       1229 GTGAAAAGAA


Statistics
Matches: 73,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  33   73  1.00

ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43


Consensus pattern (33 bp):   
TCTGTTTTGGTTGATCATAGCATTGCAAATAAT
Done.