Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013091.1 Corchorus capsularis cultivar CVL-1 contig13112, 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: 4588
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31


Found at i:2490 original size:9 final size:9

Alignment explanation


    Indices: 2463--2496  Score: 50
    Period size: 10  Copynumber: 3.6  Consensus size: 9

       2453 CTGGTCGAAA

                     
       2463 TTTTTTTAT
          1 TTTTTTTAT

                      
       2472 TTTATTTTAT
          1 TTT-TTTTAT

                     
       2482 TTTTTTTAT
          1 TTTTTTTAT

                  
       2491 ATTTTT
          1 -TTTTT

       2497 CGATATAACT


Statistics
Matches: 23,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
   9    9  0.39
  10   14  0.61

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (9 bp):   
TTTTTTTAT

Found at i:2591 original size:17 final size:17

Alignment explanation


    Indices: 2569--2602  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

       2559 GAATCGGATA

                             
       2569 TGAATTTTTGAAGTTTC
          1 TGAATTTTTGAAGTTTC

                        *    
       2586 TGAATTTTTGAATTTTC
          1 TGAATTTTTGAAGTTTC

       2603 AAGAAGGGTG


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56


Consensus pattern (17 bp):   
TGAATTTTTGAAGTTTC

Found at i:3586 original size:33 final size:33

Alignment explanation


    Indices: 3544--3606  Score: 126
    Period size: 33  Copynumber: 1.9  Consensus size: 33

       3534 GCTGGTTGTA

                                             
       3544 GCCGGACATGTCCATGTCGCGTGGCCGGTGATG
          1 GCCGGACATGTCCATGTCGCGTGGCCGGTGATG

                                          
       3577 GCCGGACATGTCCATGTCGCGTGGCCGGTG
          1 GCCGGACATGTCCATGTCGCGTGGCCGGTG

       3607 CTGTGCGGCT


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  33   30  1.00

ACGTcount: A:0.11, C:0.29, G:0.40, T:0.21


Consensus pattern (33 bp):   
GCCGGACATGTCCATGTCGCGTGGCCGGTGATG
Done.