Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017068.1 Corchorus olitorius cultivar O-4 contig17101, 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: 11967
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32


Found at i:1800 original size:12 final size:13

Alignment explanation


    Indices: 1783--1812  Score: 53
    Period size: 12  Copynumber: 2.4  Consensus size: 13

       1773 GTTTTCTTTA

                         
       1783 ATTTTCTTGATT-
          1 ATTTTCTTGATTG

                         
       1795 ATTTTCTTGATTG
          1 ATTTTCTTGATTG

                 
       1808 ATTTT
          1 ATTTT

       1813 AATTACTAGT


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  12   12  0.71
  13    5  0.29

ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67


Consensus pattern (13 bp):   
ATTTTCTTGATTG

Found at i:8421 original size:16 final size:16

Alignment explanation


    Indices: 8402--8435  Score: 50
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       8392 CTCAAAAAGA

                            
       8402 AAGGCAATAGAAAAAT
          1 AAGGCAATAGAAAAAT

                **          
       8418 AAGGTGATAGAAAAAT
          1 AAGGCAATAGAAAAAT

              
       8434 AA
          1 AA

       8436 AACTGGATAG


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.62, C:0.03, G:0.21, T:0.15


Consensus pattern (16 bp):   
AAGGCAATAGAAAAAT

Found at i:8562 original size:22 final size:21

Alignment explanation


    Indices: 8537--8583  Score: 58
    Period size: 22  Copynumber: 2.2  Consensus size: 21

       8527 CTAAGATGCA

                     *      *     
       8537 TAAAAAAAATAAATCTTAAATC
          1 TAAAAAAAAGAAAT-TGAAATC

                  *              
       8559 TAAAAACAAGAAATTGAAATC
          1 TAAAAAAAAGAAATTGAAATC

                
       8580 TAAA
          1 TAAA

       8584 CCTAAATTGG


Statistics
Matches: 22,  Mismatches: 3, Indels: 1
        0.85            0.12        0.04

Matches are distributed among these distances:
  21   10  0.45
  22   12  0.55

ACGTcount: A:0.64, C:0.09, G:0.04, T:0.23


Consensus pattern (21 bp):   
TAAAAAAAAGAAATTGAAATC
Done.