Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011866.1 Corchorus olitorius cultivar O-4 contig11899, 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: 11844
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24


Found at i:10688 original size:1 final size:1

Alignment explanation


    Indices: 10641--10674  Score: 68
    Period size: 1  Copynumber: 34.0  Consensus size: 1

      10631 ACTATGCATC

                                              
      10641 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

      10675 CTCAGCCTAA


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   33  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Found at i:11800 original size:50 final size:50

Alignment explanation


    Indices: 11715--11844  Score: 187
    Period size: 50  Copynumber: 2.7  Consensus size: 50

      11705 AGATATACAG

                *                      *                      
      11715 AAGAGTGAATTGGAAG---GTTCGAAGTATAAGCGGAAGACGGTCCTTTT
          1 AAGATTGAATTGGAAGACAGTTCGAAGGATAAGCGGAAGACGGTCCTTTT

                                   *                          
      11762 AAGATTGAATTGGAAGACAGTTCAAAGGATAAGCGGAAGACGGTCCTTTT
          1 AAGATTGAATTGGAAGACAGTTCGAAGGATAAGCGGAAGACGGTCCTTTT

                                       *      
      11812 -AGAATTGAATTGGAAGACAGTTCGAACGATAAG
          1 AAG-ATTGAATTGGAAGACAGTTCGAAGGATAAG


Statistics
Matches: 74,  Mismatches: 5, Indels: 5
        0.88            0.06        0.06

Matches are distributed among these distances:
  47   15  0.20
  49    2  0.03
  50   57  0.77

ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24


Consensus pattern (50 bp):   
AAGATTGAATTGGAAGACAGTTCGAAGGATAAGCGGAAGACGGTCCTTTT
Done.