Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022060.1 Corchorus olitorius cultivar O-4 contig22093, 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: 4767
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33


Found at i:798 original size:59 final size:59

Alignment explanation


    Indices: 706--824  Score: 238
    Period size: 59  Copynumber: 2.0  Consensus size: 59

        696 ATAGGGCAAG

                                                                       
        706 TAGGGGTCGATCCCACAGAGAAGGGTGATAGATTTTATCCGAAAATTTAGTCCTTAAAA
          1 TAGGGGTCGATCCCACAGAGAAGGGTGATAGATTTTATCCGAAAATTTAGTCCTTAAAA

                                                                       
        765 TAGGGGTCGATCCCACAGAGAAGGGTGATAGATTTTATCCGAAAATTTAGTCCTTAAAA
          1 TAGGGGTCGATCCCACAGAGAAGGGTGATAGATTTTATCCGAAAATTTAGTCCTTAAAA

             
        824 T
          1 T

        825 CTCTCAAAAA


Statistics
Matches: 60,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  59   60  1.00

ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28


Consensus pattern (59 bp):   
TAGGGGTCGATCCCACAGAGAAGGGTGATAGATTTTATCCGAAAATTTAGTCCTTAAAA

Found at i:896 original size:16 final size:15

Alignment explanation


    Indices: 856--897  Score: 57
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        846 ACAGAGATTG

                   *       
        856 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

               *           
        871 ACAAAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
        886 ACTAGAAAACAA
          1 AC-AGAAAACAA

        898 AGCAAAGTAA


Statistics
Matches: 23,  Mismatches: 3, Indels: 1
        0.85            0.11        0.04

Matches are distributed among these distances:
  15   15  0.65
  16    8  0.35

ACGTcount: A:0.67, C:0.14, G:0.07, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA

Found at i:3440 original size:15 final size:15

Alignment explanation


    Indices: 3422--3455  Score: 68
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       3412 TTTGTTGTTG

                           
       3422 GATTGTTTTTGGATT
          1 GATTGTTTTTGGATT

                           
       3437 GATTGTTTTTGGATT
          1 GATTGTTTTTGGATT

                
       3452 GATT
          1 GATT

       3456 ATCCCCCAAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   19  1.00

ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59


Consensus pattern (15 bp):   
GATTGTTTTTGGATT
Done.