Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010263.1 Corchorus capsularis cultivar CVL-1 contig10284, 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: 9426
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28


Found at i:6983 original size:13 final size:13

Alignment explanation


    Indices: 6965--6990  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       6955 CTAAAATGTT

                         
       6965 CCTTTGTTATCTA
          1 CCTTTGTTATCTA

                         
       6978 CCTTTGTTATCTA
          1 CCTTTGTTATCTA

       6991 TCCATATCTT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54


Consensus pattern (13 bp):   
CCTTTGTTATCTA

Found at i:7749 original size:33 final size:33

Alignment explanation


    Indices: 7643--7765  Score: 90
    Period size: 33  Copynumber: 3.6  Consensus size: 33

       7633 TTCAGTTTCA

                *            *            * * 
       7643 GACCTCAGACAGGTCCTCCTT-AATTTCAAAAGC
          1 GACCACAGACAGGT-CTTCTTCAATTTCAACATC

                               *                    
       7676 GACCACAGACTA-GTCTCTTTCTCATATCTTCAATTC-TC
          1 GACCACAGAC-AGGTCT-TCT-TCA-AT-TTCAA--CATC

                *                            
       7714 GACCTCAGACAGGTCTTCTTCAATTTCAACATC
          1 GACCACAGACAGGTCTTCTTCAATTTCAACATC

                      *        
       7747 GACCACAGACTGGTCTTCT
          1 GACCACAGACAGGTCTTCT

       7766 CCAAAGGTGA


Statistics
Matches: 71,  Mismatches: 9, Indels: 20
        0.71            0.09        0.20

Matches are distributed among these distances:
  32    3  0.04
  33   31  0.44
  34    7  0.10
  35    3  0.04
  36    5  0.07
  37    8  0.11
  38   14  0.20

ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30


Consensus pattern (33 bp):   
GACCACAGACAGGTCTTCTTCAATTTCAACATC
Done.