Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009919.1 Corchorus olitorius cultivar O-4 contig09951, 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: 3328
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35


Found at i:436 original size:25 final size:24

Alignment explanation


    Indices: 369--434  Score: 62
    Period size: 25  Copynumber: 2.7  Consensus size: 24

        359 AATAATAATA

                   *                
        369 AATTTGCAACGGTCTTTGCCACGG
          1 AATTTGCCACGGTCTTTGCCACGG

              *        **       *     
        393 AAATT-CCACTACTCATTTGTCACGG
          1 AATTTGCCAC-GGTC-TTTGCCACGG

                             
        418 AATTTGCCACGGTCTTT
          1 AATTTGCCACGGTCTTT

        435 TGAAAAGCCC


Statistics
Matches: 31,  Mismatches: 8, Indels: 6
        0.69            0.18        0.13

Matches are distributed among these distances:
  23    3  0.10
  24    9  0.29
  25   15  0.48
  26    4  0.13

ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33


Consensus pattern (24 bp):   
AATTTGCCACGGTCTTTGCCACGG

Found at i:2974 original size:58 final size:58

Alignment explanation


    Indices: 2879--2988  Score: 161
    Period size: 58  Copynumber: 1.9  Consensus size: 58

       2869 ATTAATCAAA

                                                          *           
       2879 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTCGGACCAAGTCT
          1 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCAAGTCT

                *            *                                    
       2937 TATCGAGTGACATGTTTTTTTATTAGATGTC-T-AAAAAAGACGTTTTAGGACC
          1 TATCAAGTGACATG-TTCTTTATTAGATG-CATAAAAAAAGACGTTTTAGGACC

       2989 GAGGCATGAT


Statistics
Matches: 47,  Mismatches: 3, Indels: 4
        0.87            0.06        0.07

Matches are distributed among these distances:
  58   32  0.68
  59   14  0.30
  60    1  0.02

ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35


Consensus pattern (58 bp):   
TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCAAGTCT
Done.