Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015635.1 Corchorus olitorius cultivar O-4 contig15668, 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: 10416
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:4459 original size:12 final size:13

Alignment explanation


    Indices: 4437--4466  Score: 53
    Period size: 12  Copynumber: 2.4  Consensus size: 13

       4427 ACTAACAATT

                         
       4437 AAAATCAATCAAG
          1 AAAATCAATCAAG

                         
       4450 AAAA-CAATCAAG
          1 AAAATCAATCAAG

                 
       4462 AAAAT
          1 AAAAT

       4467 TAAAGAAAAC


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  12   12  0.75
  13    4  0.25

ACGTcount: A:0.67, C:0.13, G:0.07, T:0.13


Consensus pattern (13 bp):   
AAAATCAATCAAG

Found at i:7043 original size:11 final size:11

Alignment explanation


    Indices: 7027--7051  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

       7017 GGGGAATAAT

                       
       7027 CAATCCAAAAA
          1 CAATCCAAAAA

                       
       7038 CAATCCAAAAA
          1 CAATCCAAAAA

               
       7049 CAA
          1 CAA

       7052 ACAATTTTCT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08


Consensus pattern (11 bp):   
CAATCCAAAAA

Found at i:9086 original size:32 final size:34

Alignment explanation


    Indices: 9006--9087  Score: 98
    Period size: 32  Copynumber: 2.5  Consensus size: 34

       8996 TGGTGCTGCA

                         *                    
       9006 TGCTGATGCGCGGGATGGCTTCGACATGGCCTGG
          1 TGCTGATGCGCGGCATGGCTTCGACATGGCCTGG

                                      *    *   
       9040 TGCTGA-GCGGCGGCATGGC-TCGACGTGG-TTGG
          1 TGCTGATGC-GCGGCATGGCTTCGACATGGCCTGG

                     *      
       9072 TGCTGATGCACGGCAT
          1 TGCTGATGCGCGGCAT

       9088 CGGCATGGCT


Statistics
Matches: 42,  Mismatches: 4, Indels: 6
        0.81            0.08        0.12

Matches are distributed among these distances:
  32   15  0.36
  33   12  0.29
  34   15  0.36

ACGTcount: A:0.12, C:0.23, G:0.41, T:0.23


Consensus pattern (34 bp):   
TGCTGATGCGCGGCATGGCTTCGACATGGCCTGG

Found at i:9147 original size:11 final size:11

Alignment explanation


    Indices: 9131--9163  Score: 66
    Period size: 11  Copynumber: 3.0  Consensus size: 11

       9121 GGCTTGTCTC

                       
       9131 GGTCATGGCCG
          1 GGTCATGGCCG

                       
       9142 GGTCATGGCCG
          1 GGTCATGGCCG

                       
       9153 GGTCATGGCCG
          1 GGTCATGGCCG

       9164 ACTGTGGCTT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   22  1.00

ACGTcount: A:0.09, C:0.27, G:0.45, T:0.18


Consensus pattern (11 bp):   
GGTCATGGCCG
Done.