Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024765.1 Corchorus olitorius cultivar O-4 contig24798, 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: 11060
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28


Found at i:2031 original size:12 final size:13

Alignment explanation


    Indices: 2014--2047  Score: 52
    Period size: 14  Copynumber: 2.6  Consensus size: 13

       2004 CCTTAGTTAT

                         
       2014 AAAAAAAAC-TTA
          1 AAAAAAAACATTA

                          
       2026 AAAAAAAACGATTA
          1 AAAAAAAAC-ATTA

                    
       2040 AAAAAAAA
          1 AAAAAAAA

       2048 AGCTAGTCAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  12    9  0.45
  14   11  0.55

ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12


Consensus pattern (13 bp):   
AAAAAAAACATTA

Found at i:9680 original size:3 final size:3

Alignment explanation


    Indices: 9672--9699  Score: 56
    Period size: 3  Copynumber: 9.3  Consensus size: 3

       9662 TTGGTCCAAC

                                                 
       9672 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
          1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A

       9700 CAGGCAAGGA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   25  1.00

ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00


Consensus pattern (3 bp):   
AAG

Found at i:10287 original size:17 final size:16

Alignment explanation


    Indices: 10265--10306  Score: 54
    Period size: 14  Copynumber: 2.8  Consensus size: 16

      10255 CTCGAGTTTG

                             
      10265 AATATAATAATATTATA
          1 AATATAATAATA-TATA

                            
      10282 AATAT-ATAA-ATATA
          1 AATATAATAATATATA

                        
      10296 AATA-AATAATA
          1 AATATAATAATA

      10307 AAAAAGAAAT


Statistics
Matches: 23,  Mismatches: 0, Indels: 6
        0.79            0.00        0.21

Matches are distributed among these distances:
  14   12  0.52
  15    2  0.09
  16    4  0.17
  17    5  0.22

ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36


Consensus pattern (16 bp):   
AATATAATAATATATA
Done.