Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005800.1 Corchorus capsularis cultivar CVL-1 contig05818, 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: 3557
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30


Found at i:406 original size:19 final size:18

Alignment explanation


    Indices: 382--419  Score: 58
    Period size: 19  Copynumber: 2.1  Consensus size: 18

        372 TTGAAGATTT

                               
        382 ATTGAAGATAATTTGAAGA
          1 ATTGAAGATAA-TTGAAGA

                     *        
        401 ATTGAAGATCATTGAAGA
          1 ATTGAAGATAATTGAAGA

             
        419 A
          1 A

        420 ATATTTCAAG


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  18    8  0.44
  19   10  0.56

ACGTcount: A:0.47, C:0.03, G:0.21, T:0.29


Consensus pattern (18 bp):   
ATTGAAGATAATTGAAGA

Found at i:431 original size:30 final size:30

Alignment explanation


    Indices: 371--431  Score: 79
    Period size: 30  Copynumber: 2.0  Consensus size: 30

        361 GAAGTTCGTG

                      *        *     *    
        371 ATTGAAGATTTATTGAAGATAATTTGAAGA
          1 ATTGAAGATTCATTGAAGAAAATTTCAAGA

                                           
        401 ATTGAAGA-TCATTGAAGAAATATTTCAAGA
          1 ATTGAAGATTCATTGAAGAAA-ATTTCAAGA

             
        431 A
          1 A

        432 ACAAGAATTG


Statistics
Matches: 27,  Mismatches: 3, Indels: 2
        0.84            0.09        0.06

Matches are distributed among these distances:
  29   10  0.37
  30   17  0.63

ACGTcount: A:0.46, C:0.03, G:0.18, T:0.33


Consensus pattern (30 bp):   
ATTGAAGATTCATTGAAGAAAATTTCAAGA
Done.