Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001441.1 Corchorus capsularis cultivar CVL-1 contig01441, 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, 670

Length: 1118
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34


Found at i:161 original size:13 final size:13

Alignment explanation


    Indices: 129--165  Score: 56
    Period size: 13  Copynumber: 2.8  Consensus size: 13

        119 ACAAAACAAG

                          
        129 TTTATTCTATTTTC
          1 TTTATTCTA-TTTC

             *           
        143 TATATTCTATTTC
          1 TTTATTCTATTTC

                      
        156 TTTATTCTAT
          1 TTTATTCTAT

        166 AATTTAAATT


Statistics
Matches: 21,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  13   13  0.62
  14    8  0.38

ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68


Consensus pattern (13 bp):   
TTTATTCTATTTC

Found at i:331 original size:16 final size:16

Alignment explanation


    Indices: 310--428  Score: 59
    Period size: 16  Copynumber: 7.4  Consensus size: 16

        300 GGTCAATTTT

                            
        310 TCGGGTCATTCGGGTC
          1 TCGGGTCATTCGGGTC

                             *
        326 TCGGGTC--TCATGGGTT
          1 TCGGGTCATTC--GGGTC

                      *      
        342 TCGGGTC-TCACGGG-C
          1 TCGGGTCAT-TCGGGTC

                   *  *      
        357 TTCGGGTTATACGGGTC
          1 -TCGGGTCATTCGGGTC

                  *   *     
        374 TCGGGTTATTTGGGTC
          1 TCGGGTCATTCGGGTC

                     *       
        390 AT-GGGTCAGTCGGGTC
          1 -TCGGGTCATTCGGGTC

            *     * *      *
        406 ACGGGTTAGTCGGGTT
          1 TCGGGTCATTCGGGTC

                   
        422 TCGGGTC
          1 TCGGGTC

        429 GGGCGGGTTC


Statistics
Matches: 80,  Mismatches: 14, Indels: 18
        0.71            0.12        0.16

Matches are distributed among these distances:
  14    2  0.03
  16   74  0.93
  17    3  0.04
  18    1  0.01

ACGTcount: A:0.08, C:0.20, G:0.39, T:0.32


Consensus pattern (16 bp):   
TCGGGTCATTCGGGTC
Done.