Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014584.1 Corchorus capsularis cultivar CVL-1 contig14605, 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: 23560
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:606 original size:8 final size:8

Alignment explanation


    Indices: 593--619  Score: 54
    Period size: 8  Copynumber: 3.4  Consensus size: 8

        583 CATTCCCTTT

                    
        593 AGGCTTAG
          1 AGGCTTAG

                    
        601 AGGCTTAG
          1 AGGCTTAG

                    
        609 AGGCTTAG
          1 AGGCTTAG

               
        617 AGG
          1 AGG

        620 TGAGAGTTGA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   8   19  1.00

ACGTcount: A:0.26, C:0.11, G:0.41, T:0.22


Consensus pattern (8 bp):   
AGGCTTAG

Found at i:8206 original size:7 final size:7

Alignment explanation


    Indices: 8194--8227  Score: 68
    Period size: 7  Copynumber: 4.9  Consensus size: 7

       8184 CTCACCGACC

                   
       8194 TGGGCAG
          1 TGGGCAG

                   
       8201 TGGGCAG
          1 TGGGCAG

                   
       8208 TGGGCAG
          1 TGGGCAG

                   
       8215 TGGGCAG
          1 TGGGCAG

                  
       8222 TGGGCA
          1 TGGGCA

       8228 TGCATGGTCG


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

Matches are distributed among these distances:
   7   27  1.00

ACGTcount: A:0.15, C:0.15, G:0.56, T:0.15


Consensus pattern (7 bp):   
TGGGCAG

Found at i:9519 original size:82 final size:82

Alignment explanation


    Indices: 9382--9536  Score: 265
    Period size: 82  Copynumber: 1.9  Consensus size: 82

       9372 AGAAATCAAT

                                              *          *                   
       9382 TCAAACTAAGAAACTACCATAAATTAACCATCTACCTACCAAATACACAAATAAACAAATTACAA
          1 TCAAACTAAGAAACTACCATAAATTAACCATCTAACTACCAAATAAACAAATAAACAAATTACAA

                             
       9447 ACTAAACTCACATTCCG
         66 ACTAAACTCACATTCCG

                                       *          *                          
       9464 TCAAACTAAGAAACTACCATAAATTAATCATCTAACTATCAAATAAACAAATAAACAAATTACAA
          1 TCAAACTAAGAAACTACCATAAATTAACCATCTAACTACCAAATAAACAAATAAACAAATTACAA

             *      
       9529 ATTAAACT
         66 ACTAAACT

       9537 TAAATTTCGT


Statistics
Matches: 68,  Mismatches: 5, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  82   68  1.00

ACGTcount: A:0.53, C:0.23, G:0.02, T:0.23


Consensus pattern (82 bp):   
TCAAACTAAGAAACTACCATAAATTAACCATCTAACTACCAAATAAACAAATAAACAAATTACAA
ACTAAACTCACATTCCG
Done.