Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013854.1 Corchorus olitorius cultivar O-4 contig13887, 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, 793

Length: 1322
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31


Found at i:357 original size:15 final size:16

Alignment explanation


    Indices: 319--359  Score: 50
    Period size: 15  Copynumber: 2.7  Consensus size: 16

        309 TCCTATTCAT

                        *   
        319 TCTTATTTTCCATTTC
          1 TCTTATTTTCCACTTC

                       *    
        335 TCTT-TTTTCCCCTTC
          1 TCTTATTTTCCACTTC

                       
        350 -CTTATTTTCC
          1 TCTTATTTTCC

        360 TTTTTCTTTT


Statistics
Matches: 22,  Mismatches: 2, Indels: 3
        0.81            0.07        0.11

Matches are distributed among these distances:
  14    3  0.14
  15   15  0.68
  16    4  0.18

ACGTcount: A:0.07, C:0.32, G:0.00, T:0.61


Consensus pattern (16 bp):   
TCTTATTTTCCACTTC

Found at i:432 original size:11 final size:11

Alignment explanation


    Indices: 416--450  Score: 54
    Period size: 11  Copynumber: 3.2  Consensus size: 11

        406 CAATTCTTTA

                       
        416 TTTCTTTATTT
          1 TTTCTTTATTT

                       
        427 TTTCTTTATTT
          1 TTTCTTTATTT

                        
        438 CTTTCTTT-TTT
          1 -TTTCTTTATTT

              
        449 TT
          1 TT

        451 ATTTAAAGGT


Statistics
Matches: 23,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  10    2  0.09
  11   14  0.61
  12    7  0.30

ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83


Consensus pattern (11 bp):   
TTTCTTTATTT

Found at i:433 original size:19 final size:19

Alignment explanation


    Indices: 409--448  Score: 71
    Period size: 19  Copynumber: 2.1  Consensus size: 19

        399 CCAAGTCCAA

                               
        409 TTCTTTATTTCTTTATTTT
          1 TTCTTTATTTCTTTATTTT

                          *    
        428 TTCTTTATTTCTTTCTTTT
          1 TTCTTTATTTCTTTATTTT

              
        447 TT
          1 TT

        449 TTATTTAAAG


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  19   20  1.00

ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80


Consensus pattern (19 bp):   
TTCTTTATTTCTTTATTTT
Done.