Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014831.1 Corchorus olitorius cultivar O-4 contig14864, 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: 11821
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31


Found at i:11067 original size:100 final size:103

Alignment explanation


    Indices: 10954--11188  Score: 368
    Period size: 100  Copynumber: 2.3  Consensus size: 103

      10944 TAATTTTAAT

                                                                             
      10954 TTTAATTTGGGCTAAACTTAGTGAATTAGTTATATATTTTATTTCTAAAACCCTATAACAAT-AT
          1 TTTAATTTGGGCTAAACTTAGTGAATTAGTTATATATTTTATTTCTAAAACCCTATAACAATAAT

                       *                          
      11018 TATTAATTATGGAATGTACCCTTAAAATAAAAA-AAAA
         66 TATTAATTATGAAATGTACCCTTAAAATAAAAATAAAA

                                           * *                               
      11055 -TTAATTTGGGCTAAACTTAGTGAATTAGTTTTGTATTTTATTTCTAAAACCCTATAACAATAAA
          1 TTTAATTTGGGCTAAACTTAGTGAATTAGTTATATATTTTATTTCTAAAACCCTATAACAAT-AA

                     *      *                      
      11119 TTATTAATTTTGAAATTTACCCTTAAAATAAAAATAAAA
         65 TTATTAATTATGAAATGTACCCTTAAAATAAAAATAAAA

                                           
      11158 TTTTAATTTGGGACTAAACTTAGTGACATTA
          1 -TTTAATTTGGG-CTAAACTTAGTGA-ATTA

      11189 AGGCTAAACT


Statistics
Matches: 122,  Mismatches: 5, Indels: 8
        0.90            0.04        0.06

Matches are distributed among these distances:
 100   59  0.48
 102   32  0.26
 103    4  0.03
 105   10  0.08
 106   13  0.11
 107    4  0.03

ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40


Consensus pattern (103 bp):   
TTTAATTTGGGCTAAACTTAGTGAATTAGTTATATATTTTATTTCTAAAACCCTATAACAATAAT
TATTAATTATGAAATGTACCCTTAAAATAAAAATAAAA

Found at i:11780 original size:13 final size:14

Alignment explanation


    Indices: 11751--11783  Score: 50
    Period size: 14  Copynumber: 2.4  Consensus size: 14

      11741 TAAAAAGATA

                     *    
      11751 AAAAAAAACGCAGG
          1 AAAAAAAACCCAGG

                          
      11765 AAAAAAAACCCA-G
          1 AAAAAAAACCCAGG

                  
      11778 AAAAAA
          1 AAAAAA

      11784 TAGTGGGTCG


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  13    7  0.39
  14   11  0.61

ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00


Consensus pattern (14 bp):   
AAAAAAAACCCAGG
Done.