Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001644.1 Corchorus olitorius cultivar O-4 contig01644, 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, 723

Length: 1205
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33


Found at i:393 original size:11 final size:11

Alignment explanation


    Indices: 377--416  Score: 53
    Period size: 11  Copynumber: 3.6  Consensus size: 11

        367 TTTTCTTGTT

                       
        377 TTTTGTTTTTA
          1 TTTTGTTTTTA

                      *
        388 TTTTGTTTTTG
          1 TTTTGTTTTTA

                 *     
        399 TTTTGCTTTTA
          1 TTTTGTTTTTA

              *    
        410 TTATGTT
          1 TTTTGTT

        417 GTCAAAATTT


Statistics
Matches: 24,  Mismatches: 5, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  11   24  1.00

ACGTcount: A:0.07, C:0.03, G:0.12, T:0.78


Consensus pattern (11 bp):   
TTTTGTTTTTA

Found at i:408 original size:17 final size:16

Alignment explanation


    Indices: 358--408  Score: 50
    Period size: 16  Copynumber: 3.1  Consensus size: 16

        348 TTAAGGGGCA

                  *         
        358 TTGTTTCTGTTTTCTT
          1 TTGTTTTTGTTTTCTT

            *             *  
        374 GT-TTTTTGTTTTTATT
          1 TTGTTTTTG-TTTTCTT

                             
        390 TTGTTTTTGTTTTGCTT
          1 TTGTTTTTGTTTT-CTT

              
        407 TT
          1 TT

        409 ATTATGTTGT


Statistics
Matches: 27,  Mismatches: 5, Indels: 5
        0.73            0.14        0.14

Matches are distributed among these distances:
  15    5  0.19
  16   12  0.44
  17   10  0.37

ACGTcount: A:0.02, C:0.06, G:0.14, T:0.78


Consensus pattern (16 bp):   
TTGTTTTTGTTTTCTT

Found at i:468 original size:50 final size:50

Alignment explanation


    Indices: 403--502  Score: 173
    Period size: 50  Copynumber: 2.0  Consensus size: 50

        393 TTTTTGTTTT

                      *                                       
        403 GCTTTTATTATGTTGTCAAAATTTTCAAAACAAAAACATGTTTGAATATA
          1 GCTTTTATTACGTTGTCAAAATTTTCAAAACAAAAACATGTTTGAATATA

                  *                                     *     
        453 GCTTTTGTTACGTTGTCAAAATTTTCAAAACAAAAACATGTTTGGATATA
          1 GCTTTTATTACGTTGTCAAAATTTTCAAAACAAAAACATGTTTGAATATA

        503 TGAGTTGTTG


Statistics
Matches: 47,  Mismatches: 3, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  50   47  1.00

ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39


Consensus pattern (50 bp):   
GCTTTTATTACGTTGTCAAAATTTTCAAAACAAAAACATGTTTGAATATA

Done.