Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010393.1 Corchorus capsularis cultivar CVL-1 contig10414, 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: 7739
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27


Found at i:4691 original size:20 final size:18

Alignment explanation


    Indices: 4650--4693  Score: 52
    Period size: 20  Copynumber: 2.3  Consensus size: 18

       4640 ATTAAAATTG

                        *     
       4650 AAGAAACGAAATCAAGAA
          1 AAGAAACGAAATAAAGAA

                               *
       4668 AAGAAGACGAAATGAAAGAC
          1 AAGAA-ACGAAAT-AAAGAA

                  
       4688 AAGAAA
          1 AAGAAA

       4694 TCAGATCTAC


Statistics
Matches: 22,  Mismatches: 2, Indels: 3
        0.81            0.07        0.11

Matches are distributed among these distances:
  18    5  0.23
  19    8  0.36
  20    9  0.41

ACGTcount: A:0.66, C:0.09, G:0.20, T:0.05


Consensus pattern (18 bp):   
AAGAAACGAAATAAAGAA

Found at i:6147 original size:29 final size:28

Alignment explanation


    Indices: 6085--6150  Score: 73
    Period size: 28  Copynumber: 2.3  Consensus size: 28

       6075 GCTTTTGGGT

                                       *
       6085 TTTTATTATTGGCCCAAAACCTTTTTAT
          1 TTTTATTATTGGCCCAAAACCTTTTTAC

                                            
       6113 TATTTATT-TTGGCCCAAAACCATTACTTT-C
          1 T-TTTATTATTGGCCCAAAACC-TT--TTTAC

                    
       6143 TTTTATTA
          1 TTTTATTA

       6151 CATTAAATTT


Statistics
Matches: 32,  Mismatches: 1, Indels: 8
        0.78            0.02        0.20

Matches are distributed among these distances:
  28   14  0.44
  29   14  0.44
  30    1  0.03
  31    3  0.09

ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50


Consensus pattern (28 bp):   
TTTTATTATTGGCCCAAAACCTTTTTAC
Done.