Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015102.1 Corchorus capsularis cultivar CVL-1 contig15123, 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: 15358
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:583 original size:19 final size:18

Alignment explanation


    Indices: 550--585  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

        540 TTGAAGTAAT

                              
        550 TCTTCAATGATCTTCAAA
          1 TCTTCAATGATCTTCAAA

                     *        
        568 TCTTCAAATTATCTTCAA
          1 TCTTC-AATGATCTTCAA

        586 GAAATCTTCA


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

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

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


Consensus pattern (18 bp):   
TCTTCAATGATCTTCAAA

Found at i:3986 original size:21 final size:20

Alignment explanation


    Indices: 3961--4000  Score: 53
    Period size: 20  Copynumber: 1.9  Consensus size: 20

       3951 TTTTATGGAG

                                 
       3961 AAAATTCATAAAACTAAAAAC
          1 AAAATT-ATAAAACTAAAAAC

                  *     *      
       3982 AAAATTTTAAAATTAAAAA
          1 AAAATTATAAAACTAAAAA

       4001 TTGGGTTGCC


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  20   11  0.65
  21    6  0.35

ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25


Consensus pattern (20 bp):   
AAAATTATAAAACTAAAAAC

Found at i:10504 original size:19 final size:18

Alignment explanation


    Indices: 10471--10506  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

      10461 TTGAAGTAAT

                              
      10471 TCTTCAATGATCTTCAAA
          1 TCTTCAATGATCTTCAAA

                     *        
      10489 TCTTCAAATTATCTTCAA
          1 TCTTC-AATGATCTTCAA

      10507 GAAATCTTCA


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

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

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


Consensus pattern (18 bp):   
TCTTCAATGATCTTCAAA
Done.