Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011924.1 Corchorus capsularis cultivar CVL-1 contig11945, 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: 7446
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32


Found at i:5358 original size:16 final size:16

Alignment explanation


    Indices: 5337--5368  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       5327 AATGGAATAG

                            
       5337 ACAATGAAACAATTAT
          1 ACAATGAAACAATTAT

                            
       5353 ACAATGAAACAATTAT
          1 ACAATGAAACAATTAT

       5369 TGTGAAGTGC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25


Consensus pattern (16 bp):   
ACAATGAAACAATTAT

Found at i:7190 original size:6 final size:6

Alignment explanation


    Indices: 7181--7232  Score: 56
    Period size: 6  Copynumber: 9.2  Consensus size: 6

       7171 AACCCAAGAC

                       *                     *                     
       7181 AACCCG AACCTG AACCCG --CCCG AACCCT AACCCG AACCCG -ACCCG
          1 AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG

             *      
       7226 AGCCCG A
          1 AACCCG A

       7233 GATCAAAATA


Statistics
Matches: 38,  Mismatches: 5, Indels: 6
        0.78            0.10        0.12

Matches are distributed among these distances:
   4    4  0.11
   5    5  0.13
   6   29  0.76

ACGTcount: A:0.29, C:0.50, G:0.17, T:0.04


Consensus pattern (6 bp):   
AACCCG

Found at i:7206 original size:22 final size:23

Alignment explanation


    Indices: 7181--7232  Score: 70
    Period size: 22  Copynumber: 2.3  Consensus size: 23

       7171 AACCCAAGAC

                      *            
       7181 AACCCGAACCTGAACCCG-CCCG
          1 AACCCGAACCCGAACCCGACCCG

                 *                 
       7203 AACCCTAACCCGAACCCGACCCG
          1 AACCCGAACCCGAACCCGACCCG

             *     
       7226 AGCCCGA
          1 AACCCGA

       7233 GATCAAAATA


Statistics
Matches: 25,  Mismatches: 4, Indels: 1
        0.83            0.13        0.03

Matches are distributed among these distances:
  22   16  0.64
  23    9  0.36

ACGTcount: A:0.29, C:0.50, G:0.17, T:0.04


Consensus pattern (23 bp):   
AACCCGAACCCGAACCCGACCCG
Done.