Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009692.1 Corchorus olitorius cultivar O-4 contig09724, 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: 7823
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32


Found at i:3283 original size:45 final size:42

Alignment explanation


    Indices: 3207--3297  Score: 121
    Period size: 45  Copynumber: 2.1  Consensus size: 42

       3197 AGTGCATTAC

                                   *                  
       3207 CTAA-ATTCTACTCTATCTATAGGTAATTCATCAAAATAAAG
          1 CTAATATTCTACTCTATCTATAGATAATTCATCAAAATAAAG

                                  *                     *
       3248 CTAATATTCTACTCCTCCATCTCTAGATAATTCATCAAAATAAAT
          1 CTAATATTCTACT-CT--ATCTATAGATAATTCATCAAAATAAAG

                 
       3293 CTAAT
          1 CTAAT

       3298 TTTAGTTGTT


Statistics
Matches: 43,  Mismatches: 3, Indels: 4
        0.86            0.06        0.08

Matches are distributed among these distances:
  41    4  0.09
  42    8  0.19
  43    2  0.05
  45   29  0.67

ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35


Consensus pattern (42 bp):   
CTAATATTCTACTCTATCTATAGATAATTCATCAAAATAAAG

Found at i:4510 original size:36 final size:36

Alignment explanation


    Indices: 4463--4534  Score: 144
    Period size: 36  Copynumber: 2.0  Consensus size: 36

       4453 ACCTAACCTA

                                                
       4463 TAAGAGGGACTAAATTGATTATTTTTTAAATAGAAG
          1 TAAGAGGGACTAAATTGATTATTTTTTAAATAGAAG

                                                
       4499 TAAGAGGGACTAAATTGATTATTTTTTAAATAGAAG
          1 TAAGAGGGACTAAATTGATTATTTTTTAAATAGAAG

       4535 GACCAAATTG


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  36   36  1.00

ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36


Consensus pattern (36 bp):   
TAAGAGGGACTAAATTGATTATTTTTTAAATAGAAG
Done.