Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009040.1 Corchorus olitorius cultivar O-4 contig09068, 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, 868

Length: 1447
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:1013 original size:18 final size:18

Alignment explanation


    Indices: 970--1014  Score: 54
    Period size: 18  Copynumber: 2.5  Consensus size: 18

        960 AAATGTAGCA

                      *     * 
        970 ACTTGGTGCGGTGCGACC
          1 ACTTGGTGCGATGCGAAC

               *             *
        988 ACTGGGTGCGATGCGAAT
          1 ACTTGGTGCGATGCGAAC

                     
       1006 ACTTGGTGC
          1 ACTTGGTGC

       1015 AGTGCGATTT


Statistics
Matches: 22,  Mismatches: 5, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  18   22  1.00

ACGTcount: A:0.16, C:0.22, G:0.38, T:0.24


Consensus pattern (18 bp):   
ACTTGGTGCGATGCGAAC

Found at i:1020 original size:18 final size:17

Alignment explanation


    Indices: 970--1021  Score: 50
    Period size: 18  Copynumber: 2.9  Consensus size: 17

        960 AAATGTAGCA

                            * 
        970 ACTTGGTGCGGTGCGACC
          1 ACTTGGTGC-GTGCGAAC

               *             *
        988 ACTGGGTGCGATGCGAAT
          1 ACTTGGTGCG-TGCGAAC

                            
       1006 ACTTGGTGCAGTGCGA
          1 ACTTGGTGC-GTGCGA

       1022 TTTGTTGATG


Statistics
Matches: 28,  Mismatches: 4, Indels: 4
        0.78            0.11        0.11

Matches are distributed among these distances:
  17    1  0.04
  18   26  0.93
  19    1  0.04

ACGTcount: A:0.17, C:0.21, G:0.38, T:0.23


Consensus pattern (17 bp):   
ACTTGGTGCGTGCGAAC
Done.