Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001210.1 Corchorus olitorius cultivar O-4 contig01210, 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: 1852
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.28


Found at i:515 original size:21 final size:21

Alignment explanation


    Indices: 489--532  Score: 79
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        479 CAAAAATACC

                                 
        489 ATGCAACTTACGGTGAACAAA
          1 ATGCAACTTACGGTGAACAAA

                              *  
        510 ATGCAACTTACGGTGAACGAA
          1 ATGCAACTTACGGTGAACAAA

              
        531 AT
          1 AT

        533 AGAGACAAAA


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  21   22  1.00

ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20


Consensus pattern (21 bp):   
ATGCAACTTACGGTGAACAAA

Found at i:663 original size:27 final size:28

Alignment explanation


    Indices: 624--697  Score: 105
    Period size: 27  Copynumber: 2.7  Consensus size: 28

        614 TAAAATGCCC

                              *         
        624 AAAATGACCAAAATGCCCTTAGA-CGTG
          1 AAAATGACCAAAATGCCCCTAGATCGTG

            *       *                *  
        651 CAAATGACTAAAATGCCCCTAGATCTTG
          1 AAAATGACCAAAATGCCCCTAGATCGTG

                               
        679 AAAATGACCAAAATGCCCC
          1 AAAATGACCAAAATGCCCC

        698 CTAGTTGATC


Statistics
Matches: 40,  Mismatches: 6, Indels: 1
        0.85            0.13        0.02

Matches are distributed among these distances:
  27   20  0.50
  28   20  0.50

ACGTcount: A:0.41, C:0.26, G:0.15, T:0.19


Consensus pattern (28 bp):   
AAAATGACCAAAATGCCCCTAGATCGTG

Done.