Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014818.1 Corchorus olitorius cultivar O-4 contig14851, 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: 4680
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36


Found at i:1877 original size:11 final size:11

Alignment explanation


    Indices: 1853--1887  Score: 52
    Period size: 11  Copynumber: 3.2  Consensus size: 11

       1843 TTGACAGCGC

                       
       1853 AACAAAAACAA
          1 AACAAAAACAA

               *     * 
       1864 AACGAAAACGA
          1 AACAAAAACAA

                       
       1875 AACAAAAACAA
          1 AACAAAAACAA

              
       1886 AA
          1 AA

       1888 AACAGAAAAA


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  11   20  1.00

ACGTcount: A:0.77, C:0.17, G:0.06, T:0.00


Consensus pattern (11 bp):   
AACAAAAACAA

Found at i:3392 original size:58 final size:58

Alignment explanation


    Indices: 3297--3409  Score: 167
    Period size: 58  Copynumber: 1.9  Consensus size: 58

       3287 ATTAATCAAA

                                                          *           
       3297 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTCGGACCGAGACT
          1 TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCGAGACT

                *            *                                       
       3355 TATCGAGTGACATGTTTTTTTATTAGATGTC-T-AAAAAAGACGTTTTAGGACCGAG
          1 TATCAAGTGACATG-TTCTTTATTAGATG-CATAAAAAAAGACGTTTTAGGACCGAG

       3410 GCATGATGCT


Statistics
Matches: 50,  Mismatches: 3, Indels: 4
        0.88            0.05        0.07

Matches are distributed among these distances:
  58   35  0.70
  59   14  0.28
  60    1  0.02

ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34


Consensus pattern (58 bp):   
TATCAAGTGACATGTTCTTTATTAGATGCATAAAAAAAGACGTTTTAGGACCGAGACT
Done.