Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020117.1 Corchorus olitorius cultivar O-4 contig20150, 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: 2738
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38


Found at i:1924 original size:27 final size:26

Alignment explanation


    Indices: 1894--1946  Score: 72
    Period size: 27  Copynumber: 2.0  Consensus size: 26

       1884 TTTTTCAATT

                                        
       1894 ATATTTCTAA-ATTGCCATTATTAAAAA
          1 ATATTT-TAATATT-CCATTATTAAAAA

                                      
       1921 ATATTTTAATTATTCCATTATTAAAA
          1 ATATTTTAA-TATTCCATTATTAAAA

       1947 TAATGAAAAT


Statistics
Matches: 24,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  26    3  0.12
  27   18  0.75
  28    3  0.12

ACGTcount: A:0.43, C:0.09, G:0.02, T:0.45


Consensus pattern (26 bp):   
ATATTTTAATATTCCATTATTAAAAA

Found at i:2043 original size:66 final size:66

Alignment explanation


    Indices: 1961--2095  Score: 270
    Period size: 66  Copynumber: 2.0  Consensus size: 66

       1951 GAAAATTTAG

                                                                             
       1961 ATTATCCTCATTAATTAGGATCTATCGTGGCCAATAGGAATGTTCCACATCATTTTTAGCATCTG
          1 ATTATCCTCATTAATTAGGATCTATCGTGGCCAATAGGAATGTTCCACATCATTTTTAGCATCTG

             
       2026 A
         66 A

                                                                             
       2027 ATTATCCTCATTAATTAGGATCTATCGTGGCCAATAGGAATGTTCCACATCATTTTTAGCATCTG
          1 ATTATCCTCATTAATTAGGATCTATCGTGGCCAATAGGAATGTTCCACATCATTTTTAGCATCTG

             
       2092 A
         66 A

               
       2093 ATT
          1 ATT

       2096 TTCGTCCAAA


Statistics
Matches: 69,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  66   69  1.00

ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37


Consensus pattern (66 bp):   
ATTATCCTCATTAATTAGGATCTATCGTGGCCAATAGGAATGTTCCACATCATTTTTAGCATCTG
A
Done.