Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004431.1 Corchorus olitorius cultivar O-4 contig04446, 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, 759

Length: 1266
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30


Found at i:245 original size:14 final size:14

Alignment explanation


    Indices: 226--252  Score: 54
    Period size: 14  Copynumber: 1.9  Consensus size: 14

        216 TTTTTGTATT

                          
        226 AGGCACAAGGCAAC
          1 AGGCACAAGGCAAC

                         
        240 AGGCACAAGGCAA
          1 AGGCACAAGGCAA

        253 AGAGTGTTAA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   13  1.00

ACGTcount: A:0.44, C:0.26, G:0.30, T:0.00


Consensus pattern (14 bp):   
AGGCACAAGGCAAC

Found at i:599 original size:205 final size:205

Alignment explanation


    Indices: 247--616  Score: 697
    Period size: 205  Copynumber: 1.8  Consensus size: 205

        237 AACAGGCACA

                                                                             
        247 AGGCAAAGAGTGTTAAAATGTTTTCAAGTAACGATAGATATGTTTTTGCCGAATGCCCATACCAG
          1 AGGCAAAGAGTGTTAAAATGTTTTCAAGTAACGATAGATATGTTTTTGCCGAATGCCCATACCAG

                                            *                                
        312 AAAGCCTTAGGCTCAAAAATTAAATAAATTTTTCCCGCAATAGGCATTAAGCTATATGCCATAAG
         66 AAAGCCTTAGGCTCAAAAATTAAATAAATTTTACCCGCAATAGGCATTAAGCTATATGCCATAAG

                                                                             
        377 CAAGAAGTTGTGCTTGCCTAATGCCTACGGCTTATCTTATAGCCTAGAGGCACAAGGCAACAGGC
        131 CAAGAAGTTGTGCTTGCCTAATGCCTACGGCTTATCTTATAGCCTAGAGGCACAAGGCAACAGGC

                      
        442 ATTAGGCATT
        196 ATTAGGCATT

                                     *                                     * 
        452 AGGCAAAGAGTGTTAAAATGTTTT-TAGTAACGATAGATATGTTTTTGCCGAATGCCCATACCTG
          1 AGGCAAAGAGTGTTAAAATGTTTTCAAGTAACGATAGATATGTTTTTGCCGAATGCCCATACCAG

                                                                             
        516 AAAGCCTTAGGCTCAAAAAATTAAATAAATTTTACCCGCAATAGGCATTAAGCTATATGCCATAA
         66 AAAGCCTTAGGCTC-AAAAATTAAATAAATTTTACCCGCAATAGGCATTAAGCTATATGCCATAA

                                                
        581 GCAAGAAGTTGTGCTTGCCTAATGCCTACGGCTTAT
        130 GCAAGAAGTTGTGCTTGCCTAATGCCTACGGCTTAT

        617 AGCCTAGAGC


Statistics
Matches: 161,  Mismatches: 3, Indels: 2
        0.97            0.02        0.01

Matches are distributed among these distances:
 204   52  0.32
 205  109  0.68

ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28


Consensus pattern (205 bp):   
AGGCAAAGAGTGTTAAAATGTTTTCAAGTAACGATAGATATGTTTTTGCCGAATGCCCATACCAG
AAAGCCTTAGGCTCAAAAATTAAATAAATTTTACCCGCAATAGGCATTAAGCTATATGCCATAAG
CAAGAAGTTGTGCTTGCCTAATGCCTACGGCTTATCTTATAGCCTAGAGGCACAAGGCAACAGGC
ATTAGGCATT
Done.