Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005990.1 Corchorus olitorius cultivar O-4 contig06015, 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, 613

Length: 1023
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33


Found at i:880 original size:83 final size:83

Alignment explanation


    Indices: 741--902  Score: 315
    Period size: 83  Copynumber: 2.0  Consensus size: 83

        731 ACTGTGGGTA

                                                                        *    
        741 CCATGGGCCATCAAAGATAAGTGTTTCTATATATTGAGATTTCTTTCGAATTATTATTAATGCTA
          1 CCATGGGCCATCAAAGATAAGTGTTTCTATATATTGAGATTTCTTTCGAATTATTATTAACGCTA

                              
        806 ATATATGTTGACACTTCT
         66 ATATATGTTGACACTTCT

                                                                             
        824 CCATGGGCCATCAAAGATAAGTGTTTCTATATATTGAGATTTCTTTCGAATTATTATTAACGCTA
          1 CCATGGGCCATCAAAGATAAGTGTTTCTATATATTGAGATTTCTTTCGAATTATTATTAACGCTA

                          
        889 ATATATGTTGACAC
         66 ATATATGTTGACAC

        903 CAGAAGTGTC


Statistics
Matches: 78,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  83   78  1.00

ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40


Consensus pattern (83 bp):   
CCATGGGCCATCAAAGATAAGTGTTTCTATATATTGAGATTTCTTTCGAATTATTATTAACGCTA
ATATATGTTGACACTTCT

Found at i:977 original size:30 final size:30

Alignment explanation


    Indices: 941--1023  Score: 157
    Period size: 30  Copynumber: 2.8  Consensus size: 30

        931 TAAATGATAT

                             *            
        941 CAGAAGTTGTCATGATCCTGCAATTGACAC
          1 CAGAAGTTGTCATGATCTTGCAATTGACAC

                                          
        971 CAGAAGTTGTCATGATCTTGCAATTGACAC
          1 CAGAAGTTGTCATGATCTTGCAATTGACAC

                                   
       1001 CAGAAGTTGTCATGATCTTGCAA
          1 CAGAAGTTGTCATGATCTTGCAA


Statistics
Matches: 52,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  30   52  1.00

ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29


Consensus pattern (30 bp):   
CAGAAGTTGTCATGATCTTGCAATTGACAC
Done.