Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011723.1 Corchorus capsularis cultivar CVL-1 contig11744, 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: 2291
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35


Found at i:241 original size:20 final size:21

Alignment explanation


    Indices: 216--254  Score: 71
    Period size: 20  Copynumber: 1.9  Consensus size: 21

        206 TATTACTTAA

                                 
        216 AAAACAATTAT-AGGTTATCT
          1 AAAACAATTATAAGGTTATCT

                               
        236 AAAACAATTATAAGGTTAT
          1 AAAACAATTATAAGGTTAT

        255 TTATAAATTC


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

Matches are distributed among these distances:
  20   11  0.61
  21    7  0.39

ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33


Consensus pattern (21 bp):   
AAAACAATTATAAGGTTATCT

Found at i:2195 original size:48 final size:51

Alignment explanation


    Indices: 2143--2246  Score: 128
    Period size: 50  Copynumber: 2.1  Consensus size: 51

       2133 ACTTTAAAAT

                              *                   *             
       2143 ATTAGAAAAAAATTA-AATACTT-T-T-AATTTAATACCAAAATATTATGAG
          1 ATTAGAAAAAAATTATAACACTTATATGAA-TTAATACAAAAATATTATGAG

                   *                            *              
       2191 ATTAG-AGAAAATTATAACACTTATATGAATTAATATAAAAATATTATGAG
          1 ATTAGAAAAAAATTATAACACTTATATGAATTAATACAAAAATATTATGAG

                  
       2241 ATTAGA
          1 ATTAGA

       2247 GTAAATCATA


Statistics
Matches: 47,  Mismatches: 4, Indels: 7
        0.81            0.07        0.12

Matches are distributed among these distances:
  47    8  0.17
  48   11  0.23
  49    1  0.02
  50   25  0.53
  51    2  0.04

ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35


Consensus pattern (51 bp):   
ATTAGAAAAAAATTATAACACTTATATGAATTAATACAAAAATATTATGAG
Done.