Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007177.1 Corchorus capsularis cultivar CVL-1 contig07198, 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: 6973
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36


Found at i:2476 original size:30 final size:30

Alignment explanation


    Indices: 2442--2502  Score: 122
    Period size: 30  Copynumber: 2.0  Consensus size: 30

       2432 AAGCTAAAGT

                                          
       2442 TGGTCAAAGTGACAATTGTAATTCTAGGAG
          1 TGGTCAAAGTGACAATTGTAATTCTAGGAG

                                          
       2472 TGGTCAAAGTGACAATTGTAATTCTAGGAG
          1 TGGTCAAAGTGACAATTGTAATTCTAGGAG

             
       2502 T
          1 T

       2503 CCTAGGTTCA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  30   31  1.00

ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31


Consensus pattern (30 bp):   
TGGTCAAAGTGACAATTGTAATTCTAGGAG

Found at i:4167 original size:16 final size:17

Alignment explanation


    Indices: 4131--4167  Score: 51
    Period size: 15  Copynumber: 2.3  Consensus size: 17

       4121 CAATTTTTGT

                             
       4131 TCAAGGTAATGGGACAC
          1 TCAAGGTAATGGGACAC

                         *   
       4148 -CAAGG-AATGGGTCAC
          1 TCAAGGTAATGGGACAC

                 
       4163 TCAAG
          1 TCAAG

       4168 AAGCAATTTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 3
        0.82            0.05        0.14

Matches are distributed among these distances:
  15    9  0.50
  16    9  0.50

ACGTcount: A:0.35, C:0.19, G:0.30, T:0.16


Consensus pattern (17 bp):   
TCAAGGTAATGGGACAC

Found at i:6626 original size:17 final size:17

Alignment explanation


    Indices: 6582--6626  Score: 81
    Period size: 17  Copynumber: 2.6  Consensus size: 17

       6572 TTTACAGTGA

                      *      
       6582 TTTTTTGTGCGTATTTG
          1 TTTTTTGTGCTTATTTG

                             
       6599 TTTTTTGTGCTTATTTG
          1 TTTTTTGTGCTTATTTG

                       
       6616 TTTTTTGTGCT
          1 TTTTTTGTGCT

       6627 GTGACAGGTA


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  17   27  1.00

ACGTcount: A:0.04, C:0.07, G:0.20, T:0.69


Consensus pattern (17 bp):   
TTTTTTGTGCTTATTTG
Done.