Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023523.1 Corchorus olitorius cultivar O-4 contig23556, 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: 17403
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32


Found at i:7043 original size:16 final size:16

Alignment explanation


    Indices: 7024--7058  Score: 61
    Period size: 16  Copynumber: 2.2  Consensus size: 16

       7014 TCCTCCCATT

                            
       7024 TTCAATTACCCCTCAA
          1 TTCAATTACCCCTCAA

                         *  
       7040 TTCAATTACCCCTTAA
          1 TTCAATTACCCCTCAA

               
       7056 TTC
          1 TTC

       7059 CACCGAATTG


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  16   18  1.00

ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37


Consensus pattern (16 bp):   
TTCAATTACCCCTCAA

Found at i:11096 original size:19 final size:18

Alignment explanation


    Indices: 11072--11107  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

      11062 TGAAGACTTA

                               
      11072 TTGAAGACAATTTGAAGAT
          1 TTGAAGACAA-TTGAAGAT

                    *        
      11091 TTGAAGACCATTGAAGA
          1 TTGAAGACAATTGAAGA

      11108 ATAATTTCAA


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:11114 original size:30 final size:30

Alignment explanation


    Indices: 11060--11119  Score: 77
    Period size: 30  Copynumber: 2.0  Consensus size: 30

      11050 GAAGTTCGTG

                      *              *    
      11060 TTTGAAGACTTATTGAAGACAATTTGAAGA
          1 TTTGAAGACTCATTGAAGACAATTTCAAGA

                                *          
      11090 TTTGAAGAC-CATTGAAGAATAATTTCAAGA
          1 TTTGAAGACTCATTGAAG-ACAATTTCAAGA

      11120 GCAAGAATCG


Statistics
Matches: 26,  Mismatches: 3, Indels: 2
        0.84            0.10        0.06

Matches are distributed among these distances:
  29    7  0.27
  30   19  0.73

ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32


Consensus pattern (30 bp):   
TTTGAAGACTCATTGAAGACAATTTCAAGA
Done.