Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012799.1 Corchorus olitorius cultivar O-4 contig12832, 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: 3371
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32


Found at i:37 original size:30 final size:30

Alignment explanation


    Indices: 1--105  Score: 192
    Period size: 30  Copynumber: 3.5  Consensus size: 30

                               * *        
          1 CTTCTGGTGTCAATTGCAACATCATGACAA
          1 CTTCTGGTGTCAATTGCAAGAGCATGACAA

                                          
         31 CTTCTGGTGTCAATTGCAAGAGCATGACAA
          1 CTTCTGGTGTCAATTGCAAGAGCATGACAA

                                          
         61 CTTCTGGTGTCAATTGCAAGAGCATGACAA
          1 CTTCTGGTGTCAATTGCAAGAGCATGACAA

                           
         91 CTTCTGGTGTCAATT
          1 CTTCTGGTGTCAATT

        106 TGTAAGTAGA


Statistics
Matches: 73,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  30   73  1.00

ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30


Consensus pattern (30 bp):   
CTTCTGGTGTCAATTGCAAGAGCATGACAA

Found at i:1068 original size:22 final size:24

Alignment explanation


    Indices: 1033--1086  Score: 60
    Period size: 22  Copynumber: 2.3  Consensus size: 24

       1023 ATAAATGTTG

                            *      *
       1033 CTGATAA-TCTTCT-CTTTTATCT
          1 CTGATAATTCTTCTCCATTTATCA

                                    
       1055 CTGATAATTC-TCTCCATTTATCA
          1 CTGATAATTCTTCTCCATTTATCA

                     
       1078 CTTGATAAT
          1 C-TGATAAT

       1087 ATCTAGTCAG


Statistics
Matches: 27,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  22   10  0.37
  23   10  0.37
  24    7  0.26

ACGTcount: A:0.24, C:0.22, G:0.06, T:0.48


Consensus pattern (24 bp):   
CTGATAATTCTTCTCCATTTATCA
Done.