Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013855.1 Corchorus capsularis cultivar CVL-1 contig13876, 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: 8243
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27


Found at i:611 original size:17 final size:19

Alignment explanation


    Indices: 584--621  Score: 53
    Period size: 17  Copynumber: 2.1  Consensus size: 19

        574 CACTAACTAA

                       *       
        584 TTTCTTTTGTTGTTT-GCT
          1 TTTCTTTTGTTCTTTCGCT

                               
        602 TTTC-TTTGTTCTTTCGCT
          1 TTTCTTTTGTTCTTTCGCT

              
        620 TT
          1 TT

        622 GCATTTTGCA


Statistics
Matches: 18,  Mismatches: 1, Indels: 2
        0.86            0.05        0.10

Matches are distributed among these distances:
  17    9  0.50
  18    9  0.50

ACGTcount: A:0.00, C:0.16, G:0.13, T:0.71


Consensus pattern (19 bp):   
TTTCTTTTGTTCTTTCGCT

Found at i:3244 original size:16 final size:16

Alignment explanation


    Indices: 3225--3256  Score: 55
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       3215 AAATGATGAT

                 *          
       3225 AATAATAAATAATAAC
          1 AATAAAAAATAATAAC

                            
       3241 AATAAAAAATAATAAC
          1 AATAAAAAATAATAAC

       3257 GATTTTTGAC


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  16   15  1.00

ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22


Consensus pattern (16 bp):   
AATAAAAAATAATAAC

Found at i:7823 original size:19 final size:18

Alignment explanation


    Indices: 7799--7835  Score: 56
    Period size: 19  Copynumber: 2.0  Consensus size: 18

       7789 TTGAAGATTT

                               
       7799 CTTGAAGACAATTTGAAGA
          1 CTTGAAGACAA-TTGAAGA

                     *        
       7818 CTTGAAGACCATTGAAGA
          1 CTTGAAGACAATTGAAGA

       7836 ATTATTTCAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  18    7  0.41
  19   10  0.59

ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24


Consensus pattern (18 bp):   
CTTGAAGACAATTGAAGA
Done.