Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014583.1 Corchorus capsularis cultivar CVL-1 contig14604, 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: 12887
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31


Found at i:11216 original size:2 final size:2

Alignment explanation


    Indices: 11209--11253  Score: 90
    Period size: 2  Copynumber: 22.5  Consensus size: 2

      11199 GAACCGAACA

                                                                          
      11209 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

                
      11251 AG A
          1 AG A

      11254 CAAAACGAGA


Statistics
Matches: 43,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   43  1.00

ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00


Consensus pattern (2 bp):   
AG

Found at i:11803 original size:28 final size:29

Alignment explanation


    Indices: 11761--11821  Score: 81
    Period size: 31  Copynumber: 2.1  Consensus size: 29

      11751 CCTTCTTTTG

                                         
      11761 CTTTTTTCTTTTTC-ATCATAGATTATTA
          1 CTTTTTTCTTTTTCAATCATAGATTATTA

                                            
      11789 CTTTTTT-TTTGTTCAAAATCATAGATTATTA
          1 CTTTTTTCTTT-TTC--AATCATAGATTATTA

              
      11820 CT
          1 CT

      11822 AACTACTAGT


Statistics
Matches: 29,  Mismatches: 0, Indels: 5
        0.85            0.00        0.15

Matches are distributed among these distances:
  27    3  0.10
  28   10  0.34
  31   16  0.55

ACGTcount: A:0.25, C:0.13, G:0.05, T:0.57


Consensus pattern (29 bp):   
CTTTTTTCTTTTTCAATCATAGATTATTA

Found at i:12586 original size:2 final size:2

Alignment explanation


    Indices: 12579--12611  Score: 66
    Period size: 2  Copynumber: 16.5  Consensus size: 2

      12569 ACATTCATCT

                                                             
      12579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

      12612 GATGCTTTTT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.