Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016757.1 Corchorus olitorius cultivar O-4 contig16790, 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: 4105
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36


Found at i:1504 original size:19 final size:18

Alignment explanation


    Indices: 1480--1515  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1470 TGAAGACTTA

                               
       1480 TTGAAGACAATTTGAAGAT
          1 TTGAAGACAA-TTGAAGAT

                    *        
       1499 TTGAAGACCATTGAAGA
          1 TTGAAGACAATTGAAGA

       1516 ATTATTTCCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28


Consensus pattern (18 bp):   
TTGAAGACAATTGAAGAT

Found at i:2839 original size:22 final size:22

Alignment explanation


    Indices: 2794--2846  Score: 63
    Period size: 22  Copynumber: 2.4  Consensus size: 22

       2784 TGCTTTCTGA

                              **  
       2794 TTAATTGTTTTCTTTAATTTTC
          1 TTAATTGTTTTCTTTAATAGTC

              *                    
       2816 TTGATTGTTTTC-TTAGATAGTC
          1 TTAATTGTTTTCTTTA-ATAGTC

                     
       2838 TTAATTGTT
          1 TTAATTGTT

       2847 ACTTTGATTT


Statistics
Matches: 26,  Mismatches: 4, Indels: 2
        0.81            0.12        0.06

Matches are distributed among these distances:
  21    3  0.12
  22   23  0.88

ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62


Consensus pattern (22 bp):   
TTAATTGTTTTCTTTAATAGTC
Done.