Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008115.1 Corchorus capsularis cultivar CVL-1 contig08136, 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: 14076
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35


Found at i:4507 original size:3 final size:3

Alignment explanation


    Indices: 4499--4548  Score: 91
    Period size: 3  Copynumber: 16.7  Consensus size: 3

       4489 TAAGATTAAG

                                                                        *  
       4499 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT
          1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT

              
       4547 AT
          1 AT

       4549 ATCTATATAT


Statistics
Matches: 45,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
   3   45  1.00

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (3 bp):   
ATT

Found at i:10325 original size:25 final size:25

Alignment explanation


    Indices: 10287--10336  Score: 91
    Period size: 25  Copynumber: 2.0  Consensus size: 25

      10277 TATATTTATA

                     *               
      10287 ACATTAAAACTTATCTTGCCTGGTC
          1 ACATTAAAAATTATCTTGCCTGGTC

                                     
      10312 ACATTAAAAATTATCTTGCCTGGTC
          1 ACATTAAAAATTATCTTGCCTGGTC

      10337 GGTTGTTGTA


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   24  1.00

ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36


Consensus pattern (25 bp):   
ACATTAAAAATTATCTTGCCTGGTC

Found at i:14016 original size:3 final size:3

Alignment explanation


    Indices: 14008--14075  Score: 136
    Period size: 3  Copynumber: 22.7  Consensus size: 3

      13998 AACCTTTTGT

                                                                           
      14008 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
          1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC

                                      
      14056 TTC TTC TTC TTC TTC TTC TT
          1 TTC TTC TTC TTC TTC TTC TT

      14076 T


Statistics
Matches: 65,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   65  1.00

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TTC

Done.