Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014746.1 Corchorus capsularis cultivar CVL-1 contig14767, 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: 8347
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39


Found at i:158 original size:21 final size:21

Alignment explanation


    Indices: 134--174  Score: 73
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        124 GATAAGTTTT

                                 
        134 CAGACAATTATTTTTCCTTTG
          1 CAGACAATTATTTTTCCTTTG

                 *              
        155 CAGACCATTATTTTTCCTTT
          1 CAGACAATTATTTTTCCTTT

        175 TTTTTTGAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49


Consensus pattern (21 bp):   
CAGACAATTATTTTTCCTTTG

Found at i:4955 original size:17 final size:18

Alignment explanation


    Indices: 4927--4961  Score: 63
    Period size: 17  Copynumber: 2.0  Consensus size: 18

       4917 CCTCCCCATA

                              
       4927 GTACCTAGGTAGTATGAG
          1 GTACCTAGGTAGTATGAG

                              
       4945 GTACC-AGGTAGTATGAG
          1 GTACCTAGGTAGTATGAG

       4962 ATGATAGGCT


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  17   12  0.71
  18    5  0.29

ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26


Consensus pattern (18 bp):   
GTACCTAGGTAGTATGAG

Found at i:7921 original size:28 final size:27

Alignment explanation


    Indices: 7860--7922  Score: 74
    Period size: 28  Copynumber: 2.3  Consensus size: 27

       7850 GTCCAGGGGT

                                     * 
       7860 ATTTTGGTCATTCTTACACTAAGGGGC
          1 ATTTTGGTCATTCTTACACTAAGGGAC

                           *      *      
       7887 ATTTTGGTCATT-TTGCACGTTCAGGGAC
          1 ATTTTGGTCATTCTTACAC--TAAGGGAC

                    
       7915 ATTTTGGT
          1 ATTTTGGT

       7923 AACTTTTAGT


Statistics
Matches: 31,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  26    5  0.16
  27   12  0.39
  28   14  0.45

ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41


Consensus pattern (27 bp):   
ATTTTGGTCATTCTTACACTAAGGGAC
Done.