Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013577.1 Corchorus olitorius cultivar O-4 contig13610, 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: 8454
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29


Found at i:2726 original size:29 final size:28

Alignment explanation


    Indices: 2671--2728  Score: 80
    Period size: 29  Copynumber: 2.0  Consensus size: 28

       2661 TTAAAATTTT

                         *               
       2671 AAGCATACTACTAGTTTTTTTAGAAAAAA
          1 AAGCATACTACTAATTTTTTTA-AAAAAA

                                         
       2700 AAGCATACTACTAATTTTCTCTTAAAAAA
          1 AAGCATACTACTAATTTT-T-TTAAAAAA

       2729 CCTATTATTA


Statistics
Matches: 26,  Mismatches: 1, Indels: 3
        0.87            0.03        0.10

Matches are distributed among these distances:
  29   17  0.65
  30    6  0.23
  31    3  0.12

ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34


Consensus pattern (28 bp):   
AAGCATACTACTAATTTTTTTAAAAAAA

Found at i:3045 original size:16 final size:15

Alignment explanation


    Indices: 3003--3057  Score: 56
    Period size: 16  Copynumber: 3.5  Consensus size: 15

       2993 TCGAAACCAT

                             
       3003 ATGACCCGAAACCGAAA
          1 ATGACCC-AAACCG-AA

             *   *         
       3020 AAGACACAAACCGAA
          1 ATGACCCAAACCGAA

                         *  
       3035 ATTGACCCAAACCCAA
          1 A-TGACCCAAACCGAA

                   
       3051 ATGACCC
          1 ATGACCC

       3058 GACATTTGAG


Statistics
Matches: 32,  Mismatches: 5, Indels: 4
        0.78            0.12        0.10

Matches are distributed among these distances:
  15    9  0.28
  16   18  0.56
  17    5  0.16

ACGTcount: A:0.47, C:0.33, G:0.13, T:0.07


Consensus pattern (15 bp):   
ATGACCCAAACCGAA
Done.