Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021549.1 Corchorus olitorius cultivar O-4 contig21582, 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: 6823
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:3390 original size:22 final size:20

Alignment explanation


    Indices: 3341--3386  Score: 76
    Period size: 19  Copynumber: 2.3  Consensus size: 20

       3331 ATAAGATTTG

                                
       3341 TAATAATTATTATTTAATAA
          1 TAATAATTATTATTTAATAA

                                 
       3361 -AATAATTATTATTTAATTAA
          1 TAATAATTATTATTTAA-TAA

                  
       3381 TAATAA
          1 TAATAA

       3387 ATTAATTTCA


Statistics
Matches: 24,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  19   16  0.67
  20    3  0.12
  21    5  0.21

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (20 bp):   
TAATAATTATTATTTAATAA

Found at i:3762 original size:14 final size:14

Alignment explanation


    Indices: 3743--3769  Score: 54
    Period size: 14  Copynumber: 1.9  Consensus size: 14

       3733 AAGGTAACAA

                          
       3743 CAAAAATCATCACC
          1 CAAAAATCATCACC

                         
       3757 CAAAAATCATCAC
          1 CAAAAATCATCAC

       3770 TCATGCCAAG


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   13  1.00

ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15


Consensus pattern (14 bp):   
CAAAAATCATCACC

Found at i:5343 original size:22 final size:22

Alignment explanation


    Indices: 5295--5345  Score: 59
    Period size: 22  Copynumber: 2.3  Consensus size: 22

       5285 AATATTACCG

                        *   **    
       5295 TAATTATTTTTGGCAGCCATAA
          1 TAATTATTTTTGCCAGAAATAA

                                   
       5317 TAATTATTTTTGCCAAGAAATAA
          1 TAATTATTTTTGCC-AGAAATAA

                   
       5340 -AATTAT
          1 TAATTAT

       5346 GGAAAAATTT


Statistics
Matches: 25,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  22   19  0.76
  23    6  0.24

ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41


Consensus pattern (22 bp):   
TAATTATTTTTGCCAGAAATAA
Done.