Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010226.1 Corchorus olitorius cultivar O-4 contig10258, 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: 1824
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36


Found at i:1430 original size:23 final size:22

Alignment explanation


    Indices: 1404--1449  Score: 65
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       1394 TTCAACAGAA

                                   
       1404 TGTACTTTCTCTTCATTTTTTTT
          1 TGTACTTTCTC-TCATTTTTTTT

                    *    *        
       1427 TGTACTTTGTCTCTTTTTTTTT
          1 TGTACTTTCTCTCATTTTTTTT

             
       1449 T
          1 T

       1450 CAAAAACAAT


Statistics
Matches: 21,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  22   11  0.52
  23   10  0.48

ACGTcount: A:0.07, C:0.15, G:0.07, T:0.72


Consensus pattern (22 bp):   
TGTACTTTCTCTCATTTTTTTT

Found at i:1612 original size:39 final size:40

Alignment explanation


    Indices: 1553--1629  Score: 138
    Period size: 39  Copynumber: 1.9  Consensus size: 40

       1543 TCCACCATTC

                                                    
       1553 ATGGCTCCCAATCGTGTCCAGAAGAAACCTTCAAGCGGTA
          1 ATGGCTCCCAATCGTGTCCAGAAGAAACCTTCAAGCGGTA

                                            *     
       1593 ATGG-TCCCAATCGTGTCCAGAAGAAACCTTCCAGCGG
          1 ATGGCTCCCAATCGTGTCCAGAAGAAACCTTCAAGCGG

       1630 CAGCAACCGC


Statistics
Matches: 36,  Mismatches: 1, Indels: 1
        0.95            0.03        0.03

Matches are distributed among these distances:
  39   32  0.89
  40    4  0.11

ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19


Consensus pattern (40 bp):   
ATGGCTCCCAATCGTGTCCAGAAGAAACCTTCAAGCGGTA
Done.