Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024823.1 Corchorus olitorius cultivar O-4 contig24856, 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: 7057
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32


Found at i:1322 original size:13 final size:13

Alignment explanation


    Indices: 1304--1329  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       1294 ACATGTCCAA

                         
       1304 TTCCTACTATTAT
          1 TTCCTACTATTAT

                         
       1317 TTCCTACTATTAT
          1 TTCCTACTATTAT

       1330 CAGCCGTCCA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54


Consensus pattern (13 bp):   
TTCCTACTATTAT

Found at i:3864 original size:20 final size:18

Alignment explanation


    Indices: 3814--3866  Score: 52
    Period size: 19  Copynumber: 2.8  Consensus size: 18

       3804 AAAATAAGCA

                           *   
       3814 CGGAGCTTGGTTTTTTGCG
          1 CGGAGC-TGGTTTTTAGCG

                  **           
       3833 CGGAGCAAGTTTGTTAGCG
          1 CGGAGCTGGTTT-TTAGCG

                           
       3852 CAGGAGCTGGTTTTT
          1 C-GGAGCTGGTTTTT

       3867 GATTTCTCGG


Statistics
Matches: 27,  Mismatches: 5, Indels: 4
        0.75            0.14        0.11

Matches are distributed among these distances:
  18    4  0.15
  19   14  0.52
  20    9  0.33

ACGTcount: A:0.13, C:0.15, G:0.36, T:0.36


Consensus pattern (18 bp):   
CGGAGCTGGTTTTTAGCG

Found at i:6996 original size:13 final size:13

Alignment explanation


    Indices: 6978--7002  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

       6968 TTTGCCAAAA

                         
       6978 AATAATTTTAAGC
          1 AATAATTTTAAGC

                        
       6991 AATAATTTTAAG
          1 AATAATTTTAAG

       7003 GTGGTAAAAA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40


Consensus pattern (13 bp):   
AATAATTTTAAGC
Done.