Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012480.1 Corchorus capsularis cultivar CVL-1 contig12501, 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: 2539
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:66 original size:8 final size:8

Alignment explanation


    Indices: 38--71  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

         28 GAATCGGCTA

                    
         38 TGAATTTT
          1 TGAATTTT

                    *
         46 TGAAGTTTC
          1 TGAA-TTTT

                    
         55 TGAATTTT
          1 TGAATTTT

                    
         63 TGAATTTT
          1 TGAATTTT

             
         71 T
          1 T

         72 CAAGAAGGTG


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


Consensus pattern (8 bp):   
TGAATTTT

Found at i:2492 original size:37 final size:36

Alignment explanation


    Indices: 2441--2511  Score: 90
    Period size: 36  Copynumber: 1.9  Consensus size: 36

       2431 TAGGCACTTG

                                    *            
       2441 GGCCAGCGCTGGCCCAAACGCCCAGGCCTGGCGCGCA
          1 GGCCAGCGCTGGCCCAAACG-CCAAGCCTGGCGCGCA

                              **               
       2478 GGCCAGGCGC-GGCCCAAGTGCCAAGCCTGGCGCG
          1 GGCCA-GCGCTGGCCCAAACGCCAAGCCTGGCGCG

       2512 GGCCAAGGCC


Statistics
Matches: 30,  Mismatches: 3, Indels: 3
        0.83            0.08        0.08

Matches are distributed among these distances:
  36   13  0.43
  37   13  0.43
  38    4  0.13

ACGTcount: A:0.15, C:0.41, G:0.38, T:0.06


Consensus pattern (36 bp):   
GGCCAGCGCTGGCCCAAACGCCAAGCCTGGCGCGCA
Done.