Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001679.1 Corchorus olitorius cultivar O-4 contig01679, 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: 3849
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32


Found at i:2429 original size:29 final size:30

Alignment explanation


    Indices: 2384--2471  Score: 106
    Period size: 29  Copynumber: 2.9  Consensus size: 30

       2374 TTGATCTGAT

                        *       *         
       2384 TTTGAAAGGTTTGGTATCAATTTGAGCAAC
          1 TTTGAAAGGTTTAGTATCAAATTGAGCAAC

                                        **
       2414 TTTG-AAGGTTTAGTATCAAATTGAGCATT
          1 TTTGAAAGGTTTAGTATCAAATTGAGCAAC

                         *   *           
       2443 TCTTGAAAGGTTTGGTACCAAATTGAGCA
          1 T-TTGAAAGGTTTAGTATCAAATTGAGCA

       2472 TTTAGCCTTT


Statistics
Matches: 50,  Mismatches: 6, Indels: 3
        0.85            0.10        0.05

Matches are distributed among these distances:
  29   22  0.44
  30    7  0.14
  31   21  0.42

ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36


Consensus pattern (30 bp):   
TTTGAAAGGTTTAGTATCAAATTGAGCAAC

Found at i:2465 original size:31 final size:30

Alignment explanation


    Indices: 2383--2474  Score: 123
    Period size: 31  Copynumber: 3.1  Consensus size: 30

       2373 ATTGATCTGA

                                 *       *
       2383 TTTTGAAAGGTTTGGTATCAATTTGAGCAA
          1 TTTTGAAAGGTTTGGTATCAAATTGAGCAT

            *            *                
       2413 CTTTG-AAGGTTTAGTATCAAATTGAGCAT
          1 TTTTGAAAGGTTTGGTATCAAATTGAGCAT

                              *            
       2442 TTCTTGAAAGGTTTGGTACCAAATTGAGCAT
          1 TT-TTGAAAGGTTTGGTATCAAATTGAGCAT

              
       2473 TT
          1 TT

       2475 AGCCTTTTAC


Statistics
Matches: 53,  Mismatches: 7, Indels: 3
        0.84            0.11        0.05

Matches are distributed among these distances:
  29   22  0.42
  30    7  0.13
  31   24  0.45

ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39


Consensus pattern (30 bp):   
TTTTGAAAGGTTTGGTATCAAATTGAGCAT
Done.