Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009428.1 Corchorus olitorius cultivar O-4 contig09459, 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, 859

Length: 1433
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32


Found at i:175 original size:21 final size:21

Alignment explanation


    Indices: 151--214  Score: 128
    Period size: 21  Copynumber: 3.0  Consensus size: 21

        141 GGAACCATGG

                                 
        151 CATATATGTTTGGAATAGATT
          1 CATATATGTTTGGAATAGATT

                                 
        172 CATATATGTTTGGAATAGATT
          1 CATATATGTTTGGAATAGATT

                                 
        193 CATATATGTTTGGAATAGATT
          1 CATATATGTTTGGAATAGATT

             
        214 C
          1 C

        215 CGTTTTGAGA


Statistics
Matches: 43,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   43  1.00

ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42


Consensus pattern (21 bp):   
CATATATGTTTGGAATAGATT

Found at i:1276 original size:15 final size:15

Alignment explanation


    Indices: 1256--1285  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       1246 AAAGGAAGTG

                           
       1256 ATTTAGACAAAAAGA
          1 ATTTAGACAAAAAGA

                           
       1271 ATTTAGACAAAAAGA
          1 ATTTAGACAAAAAGA

       1286 GAAGCAACTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.60, C:0.07, G:0.13, T:0.20


Consensus pattern (15 bp):   
ATTTAGACAAAAAGA

Found at i:1340 original size:24 final size:21

Alignment explanation


    Indices: 1276--1327  Score: 86
    Period size: 21  Copynumber: 2.5  Consensus size: 21

       1266 AAAGAATTTA

                          *      
       1276 GACAAAAAGAGAAGCAACTTG
          1 GACAAAAAGAGAAGTAACTTG

              *                  
       1297 GATAAAAAGAGAAGTAACTTG
          1 GACAAAAAGAGAAGTAACTTG

                      
       1318 GACAAAAAGA
          1 GACAAAAAGA

       1328 AACGAAGTGA


Statistics
Matches: 28,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   28  1.00

ACGTcount: A:0.56, C:0.10, G:0.23, T:0.12


Consensus pattern (21 bp):   
GACAAAAAGAGAAGTAACTTG
Done.