Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000966.1 Corchorus olitorius cultivar O-4 contig00966, 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, 703

Length: 1173
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34


Found at i:164 original size:15 final size:15

Alignment explanation


    Indices: 144--174  Score: 62
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        134 ACAATACATT

                           
        144 AACTATCAAATAGAA
          1 AACTATCAAATAGAA

                           
        159 AACTATCAAATAGAA
          1 AACTATCAAATAGAA

             
        174 A
          1 A

        175 CATGTAAATC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   16  1.00

ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19


Consensus pattern (15 bp):   
AACTATCAAATAGAA

Found at i:221 original size:14 final size:14

Alignment explanation


    Indices: 202--236  Score: 61
    Period size: 14  Copynumber: 2.5  Consensus size: 14

        192 CCTTTTAAAT

                          
        202 TAAAATAGTAAAAA
          1 TAAAATAGTAAAAA

                  *       
        216 TAAAATGGTAAAAA
          1 TAAAATAGTAAAAA

                   
        230 TAAAATA
          1 TAAAATA

        237 ATTATAAAAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  14   19  1.00

ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23


Consensus pattern (14 bp):   
TAAAATAGTAAAAA

Found at i:537 original size:16 final size:15

Alignment explanation


    Indices: 511--540  Score: 51
    Period size: 16  Copynumber: 1.9  Consensus size: 15

        501 GTACTTTTTA

                           
        511 ATATAATATAGATAG
          1 ATATAATATAGATAG

                           
        526 ATATAGATATAGATA
          1 ATATA-ATATAGATA

        541 TATACATTTT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    5  0.36
  16    9  0.64

ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33


Consensus pattern (15 bp):   
ATATAATATAGATAG
Done.