Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019111.1 Corchorus olitorius cultivar O-4 contig19144, 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: 9425
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33


Found at i:6513 original size:8 final size:8

Alignment explanation


    Indices: 6500--6535  Score: 56
    Period size: 8  Copynumber: 4.6  Consensus size: 8

       6490 TTGACACGTT

                   *
       6500 TTGTACTA
          1 TTGTACTG

                    
       6508 TTGTACTG
          1 TTGTACTG

                    
       6516 TTGTACTG
          1 TTGTACTG

                    
       6524 TTGTACT-
          1 TTGTACTG

                 
       6531 TTGTA
          1 TTGTA

       6536 ATTTGTAGTA


Statistics
Matches: 27,  Mismatches: 1, Indels: 1
        0.93            0.03        0.03

Matches are distributed among these distances:
   7    5  0.19
   8   22  0.81

ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53


Consensus pattern (8 bp):   
TTGTACTG

Found at i:7685 original size:2 final size:2

Alignment explanation


    Indices: 7680--7723  Score: 52
    Period size: 2  Copynumber: 22.0  Consensus size: 2

       7670 ATCGAACAAA

                      *           *                          *     *      
       7680 AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AC AT AC AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

              
       7722 AT
          1 AT

       7724 TTTGTAAAAT


Statistics
Matches: 34,  Mismatches: 8, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41


Consensus pattern (2 bp):   
AT

Found at i:9163 original size:62 final size:62

Alignment explanation


    Indices: 9066--9189  Score: 214
    Period size: 62  Copynumber: 2.0  Consensus size: 62

       9056 TATATATGCG

                         *                                                 
       9066 AATTATTTGTTTCGATGTATGAGTTTCTCCTAATTGATTAACTTAC-CTTCAATGCAATATCT
          1 AATTATTTGTTTCAATGTATGAGTTTCTCCTAATTGATTAACTTACACTT-AATGCAATATCT

                                                           *              
       9128 AATTATTTGTTTCAATGTATGAGTTTCTCCTAATTGATTAACTTACAGTTAATGCAATATCT
          1 AATTATTTGTTTCAATGTATGAGTTTCTCCTAATTGATTAACTTACACTTAATGCAATATCT

       9190 TCTTACTAAC


Statistics
Matches: 59,  Mismatches: 2, Indels: 2
        0.94            0.03        0.03

Matches are distributed among these distances:
  62   57  0.97
  63    2  0.03

ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45


Consensus pattern (62 bp):   
AATTATTTGTTTCAATGTATGAGTTTCTCCTAATTGATTAACTTACACTTAATGCAATATCT
Done.