Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002737.1 Corchorus capsularis cultivar CVL-1 contig02745, 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, 930

Length: 1550
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31


Found at i:120 original size:28 final size:28

Alignment explanation


    Indices: 79--143  Score: 103
    Period size: 28  Copynumber: 2.3  Consensus size: 28

         69 TGGAGCTACC

                                 *      
         79 AAAAACAGTCAACTTATTTATGGTAGCA
          1 AAAAACAGTCAACTTATTTATAGTAGCA

                     *     *            
        107 AAAAACAGTGAACTTTTTTATAGTAGCA
          1 AAAAACAGTCAACTTATTTATAGTAGCA

                     
        135 AAAAACAGT
          1 AAAAACAGT

        144 AAACATTAGG


Statistics
Matches: 34,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  28   34  1.00

ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28


Consensus pattern (28 bp):   
AAAAACAGTCAACTTATTTATAGTAGCA

Found at i:583 original size:13 final size:13

Alignment explanation


    Indices: 565--591  Score: 54
    Period size: 13  Copynumber: 2.1  Consensus size: 13

        555 TCAAATTTAC

                         
        565 AAACATTACTCAA
          1 AAACATTACTCAA

                         
        578 AAACATTACTCAA
          1 AAACATTACTCAA

             
        591 A
          1 A

        592 TAATAAAATA


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:0.56, C:0.22, G:0.00, T:0.22


Consensus pattern (13 bp):   
AAACATTACTCAA

Found at i:750 original size:12 final size:12

Alignment explanation


    Indices: 730--782  Score: 88
    Period size: 12  Copynumber: 4.4  Consensus size: 12

        720 ATCCTCCAAC

                *       
        730 TCTTGCTCACTT
          1 TCTTCCTCACTT

                        
        742 TCTTCCTCACTT
          1 TCTTCCTCACTT

                        
        754 TCTTCCTCACTT
          1 TCTTCCTCACTT

                 *      
        766 TCTTCATCACTT
          1 TCTTCCTCACTT

                 
        778 TCTTC
          1 TCTTC

        783 TTCCTCTTCA


Statistics
Matches: 39,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  12   39  1.00

ACGTcount: A:0.09, C:0.38, G:0.02, T:0.51


Consensus pattern (12 bp):   
TCTTCCTCACTT
Done.