Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010856.1 Corchorus olitorius cultivar O-4 contig10888, 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: 2504
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31


Found at i:1183 original size:154 final size:154

Alignment explanation


    Indices: 894--1185  Score: 460
    Period size: 154  Copynumber: 1.9  Consensus size: 154

        884 ATTCGTATCA

                                       *                                     
        894 TAATCTCACCAAAATGATTATAGTTAGTCCATAAACAATGGAAAGAAAAACATTGAGGTTTGCCA
          1 TAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAACATTGAGGTTTGCCA

                   *                           *                             
        959 AATCGAAGACGGTTCAAAACGGAACTAATGGGCCTCGATAGGCCAAAAATAACAAGTGTTCCAAA
         66 AATCGAAAACGGTTCAAAACGGAACTAATGGGCCTAGATAGGCCAAAAATAACAAGTGTTCCAAA

                                    
       1024 TGAGCTAAGAAATTCAAAGTGGAC
        131 TGAGCTAAGAAATTCAAAGTGGAC

                *   *                                *        * *           *
       1048 TAATGTCATCAAAATGATTATAGTTAGGCCATAAACAACT-TAAAGAAAAGCTTTGAGGTTTGCT
          1 TAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA-TGGAAAGAAAAACATTGAGGTTTGCC

                                  **                     *                   
       1112 AAATCGAAAACGGTTCAAAACGTCACTAATGGGCCTAGATAGGCCCAAAATAACAAGTGTTCCAA
         65 AAATCGAAAACGGTTCAAAACGGAACTAATGGGCCTAGATAGGCCAAAAATAACAAGTGTTCCAA

                     
       1177 ATGAGCTAA
        130 ATGAGCTAA

       1186 TGACACGGGA


Statistics
Matches: 125,  Mismatches: 12, Indels: 2
        0.90            0.09        0.01

Matches are distributed among these distances:
 154  124  0.99
 155    1  0.01

ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23


Consensus pattern (154 bp):   
TAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAACATTGAGGTTTGCCA
AATCGAAAACGGTTCAAAACGGAACTAATGGGCCTAGATAGGCCAAAAATAACAAGTGTTCCAAA
TGAGCTAAGAAATTCAAAGTGGAC
Done.