Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015511.1 Corchorus olitorius cultivar O-4 contig15544, 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: 5809
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32


Found at i:1498 original size:52 final size:52

Alignment explanation


    Indices: 1420--1526  Score: 214
    Period size: 52  Copynumber: 2.1  Consensus size: 52

       1410 AAAAATTTAT

                                                                
       1420 TTCTAGTCAATAAGATAGAAAAATAGAGAATAGGATCTTTCAAATAGACTAA
          1 TTCTAGTCAATAAGATAGAAAAATAGAGAATAGGATCTTTCAAATAGACTAA

                                                                
       1472 TTCTAGTCAATAAGATAGAAAAATAGAGAATAGGATCTTTCAAATAGACTAA
          1 TTCTAGTCAATAAGATAGAAAAATAGAGAATAGGATCTTTCAAATAGACTAA

               
       1524 TTC
          1 TTC

       1527 CTCCCCCACA


Statistics
Matches: 55,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  52   55  1.00

ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28


Consensus pattern (52 bp):   
TTCTAGTCAATAAGATAGAAAAATAGAGAATAGGATCTTTCAAATAGACTAA

Found at i:3511 original size:21 final size:22

Alignment explanation


    Indices: 3475--3515  Score: 66
    Period size: 21  Copynumber: 1.9  Consensus size: 22

       3465 AATTTCTGAT

                     *            
       3475 TCGACCTCCTTGAAGGTTGACG
          1 TCGACCTCCATGAAGGTTGACG

                                
       3497 TCGACC-CCATGAAGGTTGA
          1 TCGACCTCCATGAAGGTTGA

       3516 AACAGAATCG


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  21   12  0.67
  22    6  0.33

ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24


Consensus pattern (22 bp):   
TCGACCTCCATGAAGGTTGACG
Done.