Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002464.1 Corchorus capsularis cultivar CVL-1 contig02470, 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, 729

Length: 1216
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33


Found at i:993 original size:18 final size:18

Alignment explanation


    Indices: 966--1002  Score: 65
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        956 CTTAAACATT

                 *            
        966 TCTTATTGATGATGATGA
          1 TCTTACTGATGATGATGA

                              
        984 TCTTACTGATGATGATGA
          1 TCTTACTGATGATGATGA

             
       1002 T
          1 T

       1003 ATCGATTTTG


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43


Consensus pattern (18 bp):   
TCTTACTGATGATGATGA

Found at i:1037 original size:21 final size:20

Alignment explanation


    Indices: 1013--1051  Score: 60
    Period size: 21  Copynumber: 1.9  Consensus size: 20

       1003 ATCGATTTTG

                                 
       1013 ATGAGAGTGACGATGTTTATT
          1 ATGAGAGTGACGAT-TTTATT

                *             
       1034 ATGATAGTGACGATTTTA
          1 ATGAGAGTGACGATTTTA

       1052 GAATTTTTAT


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  20    4  0.24
  21   13  0.76

ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38


Consensus pattern (20 bp):   
ATGAGAGTGACGATTTTATT

Found at i:1117 original size:18 final size:19

Alignment explanation


    Indices: 1086--1121  Score: 65
    Period size: 18  Copynumber: 1.9  Consensus size: 19

       1076 TGGTGACCGT

                               
       1086 TATTGATGGATAGTGACGC
          1 TATTGATGGATAGTGACGC

                              
       1105 TATTGAT-GATAGTGACG
          1 TATTGATGGATAGTGACG

       1122 ATATCGATCG


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  18   10  0.59
  19    7  0.41

ACGTcount: A:0.28, C:0.08, G:0.31, T:0.33


Consensus pattern (19 bp):   
TATTGATGGATAGTGACGC
Done.