Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004439.1 Corchorus olitorius cultivar O-4 contig04454, 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, 757

Length: 1262
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28


Found at i:589 original size:14 final size:14

Alignment explanation


    Indices: 567--604  Score: 58
    Period size: 14  Copynumber: 2.7  Consensus size: 14

        557 TAACGTAGGG

                *         
        567 GTTTGGGGTTTGGA
          1 GTTTAGGGTTTGGA

                          
        581 GTTTAGGGTTTGGA
          1 GTTTAGGGTTTGGA

               *      
        595 GTTCAGGGTT
          1 GTTTAGGGTT

        605 AACCACAATC


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  14   22  1.00

ACGTcount: A:0.11, C:0.03, G:0.45, T:0.42


Consensus pattern (14 bp):   
GTTTAGGGTTTGGA

Found at i:641 original size:14 final size:14

Alignment explanation


    Indices: 618--655  Score: 58
    Period size: 14  Copynumber: 2.7  Consensus size: 14

        608 CACAATCCAG

                          
        618 AACTCTAAACCCTA
          1 AACTCTAAACCCTA

                 *    *   
        632 AACTCCAAACGCTA
          1 AACTCTAAACCCTA

                      
        646 AACTCTAAAC
          1 AACTCTAAAC

        656 ATCCACTAAA


Statistics
Matches: 21,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  14   21  1.00

ACGTcount: A:0.45, C:0.34, G:0.03, T:0.18


Consensus pattern (14 bp):   
AACTCTAAACCCTA

Found at i:646 original size:21 final size:23

Alignment explanation


    Indices: 612--660  Score: 66
    Period size: 21  Copynumber: 2.2  Consensus size: 23

        602 GTTAACCACA

                     *             
        612 ATCCAGAACTCTAAACCCTAAAC
          1 ATCCAGAACGCTAAACCCTAAAC

                            *      
        635 -TCCA-AACGCTAAACTCTAAAC
          1 ATCCAGAACGCTAAACCCTAAAC

                 
        656 ATCCA
          1 ATCCA

        661 CTAAAGTCCA


Statistics
Matches: 23,  Mismatches: 2, Indels: 3
        0.82            0.07        0.11

Matches are distributed among these distances:
  21   15  0.65
  22    8  0.35

ACGTcount: A:0.43, C:0.35, G:0.04, T:0.18


Consensus pattern (23 bp):   
ATCCAGAACGCTAAACCCTAAAC
Done.