Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01003398.1 Corchorus olitorius cultivar O-4 contig03405, 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, 746

Length: 1244
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34


Found at i:545 original size:23 final size:22

Alignment explanation


    Indices: 519--569  Score: 75
    Period size: 22  Copynumber: 2.3  Consensus size: 22

        509 ATTCAAAAGG

                                   
        519 TTCTTGACAGCTTACAATAAGTT
          1 TTCTT-ACAGCTTACAATAAGTT

                  * *             
        542 TTCTTATATCTTACAATAAGTT
          1 TTCTTACAGCTTACAATAAGTT

                  
        564 TTCTTA
          1 TTCTTA

        570 TATATATGCT


Statistics
Matches: 26,  Mismatches: 2, Indels: 1
        0.90            0.07        0.03

Matches are distributed among these distances:
  22   21  0.81
  23    5  0.19

ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47


Consensus pattern (22 bp):   
TTCTTACAGCTTACAATAAGTT

Found at i:555 original size:22 final size:22

Alignment explanation


    Indices: 529--572  Score: 88
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        519 TTCTTGACAG

                                  
        529 CTTACAATAAGTTTTCTTATAT
          1 CTTACAATAAGTTTTCTTATAT

                                  
        551 CTTACAATAAGTTTTCTTATAT
          1 CTTACAATAAGTTTTCTTATAT

        573 ATATGCTGTC


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.32, C:0.14, G:0.05, T:0.50


Consensus pattern (22 bp):   
CTTACAATAAGTTTTCTTATAT

Found at i:669 original size:49 final size:49

Alignment explanation


    Indices: 613--710  Score: 196
    Period size: 49  Copynumber: 2.0  Consensus size: 49

        603 CTTAGCCTTT

                                                             
        613 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA
          1 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA

                                                             
        662 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA
          1 TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA

        711 AACCTATTCC


Statistics
Matches: 49,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  49   49  1.00

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


Consensus pattern (49 bp):   
TTTTATTCAATTCAATTAGATGTTAATGTAAATGAACCATAACTATGTA
Done.