Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014537.1 Corchorus capsularis cultivar CVL-1 contig14558, 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: 21576
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35


Found at i:10900 original size:10 final size:10

Alignment explanation


    Indices: 10877--10909  Score: 52
    Period size: 10  Copynumber: 3.5  Consensus size: 10

      10867 CAATGCTTTT

                      
      10877 TATA-TATAC
          1 TATATTATAC

                      
      10886 T-TATTATAC
          1 TATATTATAC

                      
      10895 TATATTATAC
          1 TATATTATAC

                 
      10905 TATAT
          1 TATAT

      10910 AAATGTATAA


Statistics
Matches: 22,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
   8    2  0.09
   9    7  0.32
  10   13  0.59

ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52


Consensus pattern (10 bp):   
TATATTATAC

Found at i:15496 original size:22 final size:22

Alignment explanation


    Indices: 15451--15496  Score: 58
    Period size: 22  Copynumber: 2.1  Consensus size: 22

      15441 AGCAAAGTGT

                              **  
      15451 TTATATTTATATAATTGGTGTA
          1 TTATATTTATATAATTGGAATA

                                   
      15473 TTATATTTATAT-ATGTGGAATA
          1 TTATATTTATATAAT-TGGAATA

              
      15495 TT
          1 TT

      15497 GGTGTATGCA


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  21    2  0.10
  22   19  0.90

ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54


Consensus pattern (22 bp):   
TTATATTTATATAATTGGAATA

Found at i:18142 original size:3 final size:3

Alignment explanation


    Indices: 18134--18164  Score: 53
    Period size: 3  Copynumber: 10.3  Consensus size: 3

      18124 TCTATTTGGG

                                          *          
      18134 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

      18165 AAATATGATC


Statistics
Matches: 26,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   3   26  1.00

ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68


Consensus pattern (3 bp):   
TTA

Found at i:20596 original size:2 final size:2

Alignment explanation


    Indices: 20589--20616  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

      20579 ACCATATCAA

                                                     
      20589 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT

      20617 TTGATATGGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.