Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013781.1 Corchorus capsularis cultivar CVL-1 contig13802, 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: 7312
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30


Found at i:3415 original size:106 final size:106

Alignment explanation


    Indices: 3230--3440  Score: 332
    Period size: 106  Copynumber: 2.0  Consensus size: 106

       3220 GGAGAGGGGA

                    *          *          *                          *    *  
       3230 TGATGCGCTAAGGGCTTATGATGGCTTAGACGGACACATTGGAGCCAATGAAGATCATGGAGTTG
          1 TGATGCGCCAAGGGCTTATCATGGCTTAGAAGGACACATTGGAGCCAATGAAGATCAAGGAGATG

                                    *                
       3295 ACATCAATGCTAGCTTGGAGGAGCTTGGAGATGGAAGCACT
         66 ACATCAATGCTAGCTTGGAGGAGCATGGAGATGGAAGCACT

                                                                             
       3336 TGATGCGCCAAGGGCTTATCATGGCTTAGAAGGACACATTGGAGCCAATGAAGATCAAGGAGATG
          1 TGATGCGCCAAGGGCTTATCATGGCTTAGAAGGACACATTGGAGCCAATGAAGATCAAGGAGATG

            *    *                        *    *    
       3401 TCATCGATGCTAGCTTGGAGGAGCATGGAGTTGGAGGCAC
         66 ACATCAATGCTAGCTTGGAGGAGCATGGAGATGGAAGCAC

       3441 GAGTGACCGG


Statistics
Matches: 95,  Mismatches: 10, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
 106   95  1.00

ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22


Consensus pattern (106 bp):   
TGATGCGCCAAGGGCTTATCATGGCTTAGAAGGACACATTGGAGCCAATGAAGATCAAGGAGATG
ACATCAATGCTAGCTTGGAGGAGCATGGAGATGGAAGCACT

Found at i:4491 original size:8 final size:8

Alignment explanation


    Indices: 4478--4511  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

       4468 ACCCTTCTTG

                    
       4478 AAAAATTC
          1 AAAAATTC

                    
       4486 AAAAATTC
          1 AAAAATTC

                 *   
       4494 AGAAACTTC
          1 A-AAAATTC

                    
       4503 AAAAATTC
          1 AAAAATTC

             
       4511 A
          1 A

       4512 TAGCCGATTT


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24


Consensus pattern (8 bp):   
AAAAATTC
Done.