Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015533.1 Corchorus capsularis cultivar CVL-1 contig15554, 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: 6059
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:1552 original size:25 final size:25

Alignment explanation


    Indices: 1524--1574  Score: 93
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       1514 TGAGATTGCC

                            *        
       1524 TATGGGAATTGGTTGCGTGCTGAAG
          1 TATGGGAATTGGTTGCATGCTGAAG

                                     
       1549 TATGGGAATTGGTTGCATGCTGAAG
          1 TATGGGAATTGGTTGCATGCTGAAG

             
       1574 T
          1 T

       1575 TCCCAGATCA


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   25  1.00

ACGTcount: A:0.22, C:0.08, G:0.37, T:0.33


Consensus pattern (25 bp):   
TATGGGAATTGGTTGCATGCTGAAG

Found at i:5766 original size:32 final size:32

Alignment explanation


    Indices: 5712--5775  Score: 76
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       5702 GGGGATCATG

                       ***   *               
       5712 TTCCCATTAGTTGTATTGGTCATAGT-CATATC
          1 TTCCCATTAGTCACATTAGTCAT-GTACATATC

                                            
       5744 TTCCCATTAGTCACATTAGTCATGTACATATC
          1 TTCCCATTAGTCACATTAGTCATGTACATATC

       5776 CATTTTCATT


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  31    2  0.07
  32   25  0.93

ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41


Consensus pattern (32 bp):   
TTCCCATTAGTCACATTAGTCATGTACATATC
Done.