Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008845.1 Corchorus capsularis cultivar CVL-1 contig08866, 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: 8919
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35


Found at i:6222 original size:12 final size:11

Alignment explanation


    Indices: 6177--6242  Score: 51
    Period size: 11  Copynumber: 5.7  Consensus size: 11

       6167 TTTCGTTTAA

                  *    
       6177 GATTTTCTTTT
          1 GATTTTTTTTT

            *        * 
       6188 AATTTTTTTCT
          1 GATTTTTTTTT

            **          
       6199 CTTTTTTATTTT
          1 GATTTTT-TTTT

                        
       6211 GATTTGTTTTTT
          1 GATTT-TTTTTT

                        
       6223 GAATTTTTTTTT
          1 G-ATTTTTTTTT

            *       
       6235 AATTTTTT
          1 GATTTTTT

       6243 ATCCAGAGAA


Statistics
Matches: 43,  Mismatches: 9, Indels: 6
        0.74            0.16        0.10

Matches are distributed among these distances:
  11   20  0.47
  12   17  0.40
  13    6  0.14

ACGTcount: A:0.14, C:0.05, G:0.06, T:0.76


Consensus pattern (11 bp):   
GATTTTTTTTT

Found at i:6408 original size:29 final size:31

Alignment explanation


    Indices: 6363--6440  Score: 99
    Period size: 29  Copynumber: 2.6  Consensus size: 31

       6353 GCTTAGTTAA

                    *                       
       6363 CTCCACTTAAGGGACCAAATTACATATTTT-T
          1 CTCCACTTCAGGGACCAAATTAC-TATTTTCT

                              *            
       6394 -T-CACTTCAGGGACCAATTTACTATTTTCT
          1 CTCCACTTCAGGGACCAAATTACTATTTTCT

                      *       
       6423 CTCCACTTCAAGGACCAA
          1 CTCCACTTCAGGGACCAA

       6441 TTTTGTACTT


Statistics
Matches: 41,  Mismatches: 3, Indels: 6
        0.82            0.06        0.12

Matches are distributed among these distances:
  28    6  0.15
  29   19  0.46
  30    2  0.05
  31   14  0.34

ACGTcount: A:0.29, C:0.27, G:0.10, T:0.33


Consensus pattern (31 bp):   
CTCCACTTCAGGGACCAAATTACTATTTTCT

Done.