Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019556.1 Corchorus olitorius cultivar O-4 contig19589, 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, 884

Length: 1474
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31


Found at i:316 original size:33 final size:33

Alignment explanation


    Indices: 279--408  Score: 122
    Period size: 33  Copynumber: 3.9  Consensus size: 33

        269 TTTAGCATCC

                           *                  
        279 AAAACAGAATTT-GTTTCATCACAAACAACACCT
          1 AAAACAG-ATTTAGTGTCATCACAAACAACACCT

                                             
        312 AAAACAGATTTAGTGTCATCACAAACAACA-CT
          1 AAAACAGATTTAGTGTCATCACAAACAACACCT

                **  * *    *     *         *  
        344 CAAATTAGGTCTAGTATCATCGCAAACAACATCT
          1 -AAAACAGATTTAGTGTCATCACAAACAACACCT

                                **          
        378 AAAACAGATTTCA-TGTCATTGCAAACAACAC
          1 AAAACAGATTT-AGTGTCATCACAAACAACAC

        409 TCAAACCAGG


Statistics
Matches: 79,  Mismatches: 14, Indels: 8
        0.78            0.14        0.08

Matches are distributed among these distances:
  32    6  0.08
  33   70  0.89
  34    3  0.04

ACGTcount: A:0.44, C:0.23, G:0.09, T:0.24


Consensus pattern (33 bp):   
AAAACAGATTTAGTGTCATCACAAACAACACCT

Found at i:1027 original size:15 final size:15

Alignment explanation


    Indices: 1007--1035  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

        997 AACTAAGTGG

                           
       1007 AGCTTGTTGATTTTA
          1 AGCTTGTTGATTTTA

                          
       1022 AGCTTGTTGATTTT
          1 AGCTTGTTGATTTT

       1036 GAACCCCCAA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55


Consensus pattern (15 bp):   
AGCTTGTTGATTTTA
Done.