Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01013332.1 Corchorus capsularis cultivar CVL-1 contig13353, 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: 5329
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35


Found at i:1318 original size:26 final size:26

Alignment explanation


    Indices: 1274--1323  Score: 64
    Period size: 26  Copynumber: 1.9  Consensus size: 26

       1264 ATGATTTAGG

                      *   *           
       1274 GGTTACTAACGCCCTTTTTCTTTTGA
          1 GGTTACTAACACCCATTTTCTTTTGA

                        *      *    
       1300 GGTTACTAACACTCATTTTTTTTT
          1 GGTTACTAACACCCATTTTCTTTT

       1324 CAAGAGGGAC


Statistics
Matches: 20,  Mismatches: 4, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  26   20  1.00

ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50


Consensus pattern (26 bp):   
GGTTACTAACACCCATTTTCTTTTGA

Found at i:1825 original size:11 final size:11

Alignment explanation


    Indices: 1809--1840  Score: 55
    Period size: 11  Copynumber: 2.9  Consensus size: 11

       1799 TCGAAGTTCG

                       
       1809 TATTTGAAGAT
          1 TATTTGAAGAT

                       
       1820 TATTTGAAGAT
          1 TATTTGAAGAT

            *         
       1831 AATTTGAAGA
          1 TATTTGAAGA

       1841 ATTGAAGACC


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  11   20  1.00

ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41


Consensus pattern (11 bp):   
TATTTGAAGAT

Found at i:1847 original size:19 final size:18

Alignment explanation


    Indices: 1823--1861  Score: 51
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       1813 TGAAGATTAT

                   *           
       1823 TTGAAGATAATTTGAAGAA
          1 TTGAAGACAA-TTGAAGAA

                    *         
       1842 TTGAAGACCATTGAAGAA
          1 TTGAAGACAATTGAAGAA

              
       1860 TT
          1 TT

       1862 ATTTCAAGAA


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  18   10  0.56
  19    8  0.44

ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31


Consensus pattern (18 bp):   
TTGAAGACAATTGAAGAA
Done.