Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015111.1 Corchorus capsularis cultivar CVL-1 contig15132, 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: 8586
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34


Found at i:2512 original size:13 final size:13

Alignment explanation


    Indices: 2494--2537  Score: 65
    Period size: 13  Copynumber: 3.5  Consensus size: 13

       2484 AATTATTGTT

                         
       2494 TGCTTTATTAATC
          1 TGCTTTATTAATC

                        *
       2507 TGCTTTATTAATT
          1 TGCTTTATTAATC

                         
       2520 TGCTTTA-T-ATC
          1 TGCTTTATTAATC

                   
       2531 TGCTTTA
          1 TGCTTTA

       2538 GATTTAGATT


Statistics
Matches: 29,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  11    9  0.31
  12    1  0.03
  13   19  0.66

ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57


Consensus pattern (13 bp):   
TGCTTTATTAATC

Found at i:2545 original size:6 final size:6

Alignment explanation


    Indices: 2534--2566  Score: 66
    Period size: 6  Copynumber: 5.5  Consensus size: 6

       2524 TTATATCTGC

                                                  
       2534 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTT
          1 TTTAGA TTTAGA TTTAGA TTTAGA TTTAGA TTT

       2567 GCTTTGCTTT


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   27  1.00

ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55


Consensus pattern (6 bp):   
TTTAGA

Found at i:7271 original size:19 final size:18

Alignment explanation


    Indices: 7247--7282  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       7237 TGAAGATTTC

                               
       7247 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       7266 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       7283 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT
Done.