Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018650.1 Corchorus olitorius cultivar O-4 contig18683, 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: 8490
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28


Found at i:1300 original size:20 final size:21

Alignment explanation


    Indices: 1245--1300  Score: 64
    Period size: 20  Copynumber: 2.8  Consensus size: 21

       1235 TTTATAGTAC

                                  
       1245 AACAAACAGAGGT-TAAATGCA
          1 AACAAACAGA-GTCTAAATGCA

                 *     *         
       1266 AA-AACCAGAGGCTAAATGCA
          1 AACAAACAGAGTCTAAATGCA

                            
       1286 AACAAACA-AGTCTAA
          1 AACAAACAGAGTCTAA

       1301 CACAACACAA


Statistics
Matches: 29,  Mismatches: 4, Indels: 5
        0.76            0.11        0.13

Matches are distributed among these distances:
  19    1  0.03
  20   22  0.76
  21    6  0.21

ACGTcount: A:0.54, C:0.18, G:0.16, T:0.12


Consensus pattern (21 bp):   
AACAAACAGAGTCTAAATGCA

Found at i:2091 original size:13 final size:13

Alignment explanation


    Indices: 2041--2100  Score: 50
    Period size: 13  Copynumber: 4.5  Consensus size: 13

       2031 ACTTTAGGTT

                         
       2041 TATAT-ATATATA
          1 TATATAATATATA

               *       *   
       2053 TATCTGAATTAAATA
          1 TATAT-AA-TATATA

                 **     *
       2068 TATATTTTATATT
          1 TATATAATATATA

                         
       2081 TATATAATATATA
          1 TATATAATATATA

                   
       2094 TATATAA
          1 TATATAA

       2101 AAAGTAAAAA


Statistics
Matches: 35,  Mismatches: 10, Indels: 5
        0.70            0.20        0.10

Matches are distributed among these distances:
  12    4  0.11
  13   21  0.60
  14    1  0.03
  15    9  0.26

ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50


Consensus pattern (13 bp):   
TATATAATATATA
Done.