Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013084.1 Corchorus capsularis cultivar CVL-1 contig13105, 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: 15608
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:8154 original size:15 final size:15

Alignment explanation


    Indices: 8134--8167  Score: 50
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       8124 CTTGTGAAGA

                        *  
       8134 TTGAAAATTAGGTCT
          1 TTGAAAATTAGGCCT

                     *     
       8149 TTGAAAATTCGGCCT
          1 TTGAAAATTAGGCCT

                
       8164 TTGA
          1 TTGA

       8168 TCGTGTCGTC


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38


Consensus pattern (15 bp):   
TTGAAAATTAGGCCT

Found at i:8351 original size:15 final size:16

Alignment explanation


    Indices: 8321--8351  Score: 55
    Period size: 16  Copynumber: 2.0  Consensus size: 16

       8311 AACAGGGGAT

                            
       8321 TAAAGAAAATCAATTA
          1 TAAAGAAAATCAATTA

                            
       8337 TAAAGAAAA-CAATTA
          1 TAAAGAAAATCAATTA

       8352 AACTAAAAAT


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

Matches are distributed among these distances:
  15    6  0.40
  16    9  0.60

ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23


Consensus pattern (16 bp):   
TAAAGAAAATCAATTA

Found at i:15492 original size:15 final size:16

Alignment explanation


    Indices: 15462--15492  Score: 55
    Period size: 16  Copynumber: 2.0  Consensus size: 16

      15452 AACAGGGGAT

                            
      15462 TAAAGAAAATCAATTA
          1 TAAAGAAAATCAATTA

                            
      15478 TAAAGAAAA-CAATTA
          1 TAAAGAAAATCAATTA

      15493 AACTAAAAAT


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

Matches are distributed among these distances:
  15    6  0.40
  16    9  0.60

ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23


Consensus pattern (16 bp):   
TAAAGAAAATCAATTA
Done.