Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014363.1 Corchorus capsularis cultivar CVL-1 contig14384, 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: 8272
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31


Found at i:305 original size:2 final size:2

Alignment explanation


    Indices: 298--326  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

        288 TATAATTAGG

                                                       
        298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

        327 ATAAGGCTTT


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

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


Consensus pattern (2 bp):   
AT

Found at i:2411 original size:12 final size:12

Alignment explanation


    Indices: 2394--2424  Score: 53
    Period size: 12  Copynumber: 2.6  Consensus size: 12

       2384 TACTAAACCA

                        
       2394 ATCCTCCTCAAT
          1 ATCCTCCTCAAT

                  *     
       2406 ATCCTCTTCAAT
          1 ATCCTCCTCAAT

                   
       2418 ATCCTCC
          1 ATCCTCC

       2425 AAAACTCTAC


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  12   17  1.00

ACGTcount: A:0.23, C:0.42, G:0.00, T:0.35


Consensus pattern (12 bp):   
ATCCTCCTCAAT

Found at i:8160 original size:16 final size:16

Alignment explanation


    Indices: 8141--8171  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

       8131 AGAAGAACAA

                *           
       8141 GAAAGAAAAAGAAAAG
          1 GAAAAAAAAAGAAAAG

                           
       8157 GAAAAAAAAAGAAAA
          1 GAAAAAAAAAGAAAA

       8172 AAGAAGAGAT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  16   14  1.00

ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00


Consensus pattern (16 bp):   
GAAAAAAAAAGAAAAG
Done.