Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005431.1 Corchorus olitorius cultivar O-4 contig05455, 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, 630

Length: 1050
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29


Found at i:1011 original size:15 final size:15

Alignment explanation


    Indices: 991--1037  Score: 50
    Period size: 15  Copynumber: 3.4  Consensus size: 15

        981 ACTGAAGACA

                           
        991 ATTTGATTAGGATTC
          1 ATTTGATTAGGATTC

                           
       1006 ATTTGA--A-GA--C
          1 ATTTGATTAGGATTC

                            
       1016 AATTTGATTAGGATTC
          1 -ATTTGATTAGGATTC

                  
       1032 ATTTGA
          1 ATTTGA

       1038 AGACAATTTG


Statistics
Matches: 26,  Mismatches: 0, Indels: 12
        0.68            0.00        0.32

Matches are distributed among these distances:
  10    1  0.04
  11    6  0.23
  12    2  0.08
  13    2  0.08
  14    2  0.08
  15   12  0.46
  16    1  0.04

ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43


Consensus pattern (15 bp):   
ATTTGATTAGGATTC

Found at i:1019 original size:26 final size:26

Alignment explanation


    Indices: 983--1050  Score: 136
    Period size: 26  Copynumber: 2.6  Consensus size: 26

        973 TTCTGCCCAC

                                      
        983 TGAAGACAATTTGATTAGGATTCATT
          1 TGAAGACAATTTGATTAGGATTCATT

                                      
       1009 TGAAGACAATTTGATTAGGATTCATT
          1 TGAAGACAATTTGATTAGGATTCATT

                            
       1035 TGAAGACAATTTGATT
          1 TGAAGACAATTTGATT


Statistics
Matches: 42,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  26   42  1.00

ACGTcount: A:0.35, C:0.07, G:0.19, T:0.38


Consensus pattern (26 bp):   
TGAAGACAATTTGATTAGGATTCATT
Done.