Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001093.1 Corchorus capsularis cultivar CVL-1 contig01093, 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: 13264
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35


Found at i:2480 original size:14 final size:14

Alignment explanation


    Indices: 2461--2488  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

       2451 AGTCAGCAGA

                          
       2461 ATGAACAAGTTGGG
          1 ATGAACAAGTTGGG

                          
       2475 ATGAACAAGTTGGG
          1 ATGAACAAGTTGGG

       2489 GTAATCACAA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.36, C:0.07, G:0.36, T:0.21


Consensus pattern (14 bp):   
ATGAACAAGTTGGG

Found at i:5418 original size:27 final size:28

Alignment explanation


    Indices: 5368--5423  Score: 78
    Period size: 29  Copynumber: 2.0  Consensus size: 28

       5358 GCAAGCGCCG

                           *             
       5368 TATAACTATATATATTGTTATAAGAAAAA
          1 TATAACTATATATATAG-TATAAGAAAAA

                              *         
       5397 TATAACTATATATATAG-GTAAGAAAAA
          1 TATAACTATATATATAGTATAAGAAAAA

       5424 AAAAAGTGTT


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  27    9  0.36
  29   16  0.64

ACGTcount: A:0.54, C:0.04, G:0.09, T:0.34


Consensus pattern (28 bp):   
TATAACTATATATATAGTATAAGAAAAA

Done.