Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022134.1 Corchorus olitorius cultivar O-4 contig22167, 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, 702

Length: 1171
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28


Found at i:536 original size:17 final size:16

Alignment explanation


    Indices: 514--560  Score: 51
    Period size: 16  Copynumber: 2.9  Consensus size: 16

        504 AAAAATAAAC

                             
        514 AAAAATAAAAGAAAAAG
          1 AAAAAT-AAAGAAAAAG

                    *      *
        531 AAAAATAACGAAAAAT
          1 AAAAATAAAGAAAAAG

                     *     
        547 AAAAA-AAATAAAAA
          1 AAAAATAAAGAAAAA

        561 AAATAAAAAG


Statistics
Matches: 26,  Mismatches: 4, Indels: 2
        0.81            0.12        0.06

Matches are distributed among these distances:
  15    7  0.27
  16   13  0.50
  17    6  0.23

ACGTcount: A:0.83, C:0.02, G:0.06, T:0.09


Consensus pattern (16 bp):   
AAAAATAAAGAAAAAG

Found at i:553 original size:9 final size:9

Alignment explanation


    Indices: 504--569  Score: 80
    Period size: 9  Copynumber: 7.2  Consensus size: 9

        494 AGTAACTAAG

                     
        504 AAAAATAAA
          1 AAAAATAAA

                      
        513 CAAAAATAAA
          1 -AAAAATAAA

             *      *
        523 AGAAA-AAG
          1 AAAAATAAA

                     *
        531 AAAAATAACG
          1 AAAAATAA-A

                     
        541 AAAAATAAA
          1 AAAAATAAA

                     
        550 AAAAATAAA
          1 AAAAATAAA

                     
        559 AAAAATAAA
          1 AAAAATAAA

              
        568 AA
          1 AA

        570 GATAAGGTAA


Statistics
Matches: 50,  Mismatches: 4, Indels: 5
        0.85            0.07        0.08

Matches are distributed among these distances:
   8    6  0.12
   9   26  0.52
  10   18  0.36

ACGTcount: A:0.83, C:0.03, G:0.05, T:0.09


Consensus pattern (9 bp):   
AAAAATAAA

Done.