Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012422.1 Corchorus olitorius cultivar O-4 contig12455, 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: 3128
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32


Found at i:144 original size:19 final size:18

Alignment explanation


    Indices: 120--155  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

        110 TGAAGATTTA

                               
        120 TTGAAGATAATTTGAAGAC
          1 TTGAAGATAA-TTGAAGAC

                    *        
        139 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

        156 ATTATTTCCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.06, G:0.22, T:0.31


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAC

Found at i:2632 original size:15 final size:16

Alignment explanation


    Indices: 2608--2649  Score: 54
    Period size: 16  Copynumber: 2.8  Consensus size: 16

       2598 ACAGAGGTTG

                            
       2608 ACAG-AAAACAA-TAA
          1 ACAGAAAAACAATTAA

                            
       2622 ACAGAAAAACAATTAA
          1 ACAGAAAAACAATTAA

                         
       2638 ACTA-AAAAACAA
          1 AC-AGAAAAACAA

       2650 ACCAGAGTAA


Statistics
Matches: 25,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  14    4  0.16
  15    7  0.28
  16   13  0.52
  17    1  0.04

ACGTcount: A:0.71, C:0.14, G:0.05, T:0.10


Consensus pattern (16 bp):   
ACAGAAAAACAATTAA

Done.