Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015874.1 Corchorus olitorius cultivar O-4 contig15907, 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: 12162
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29


Found at i:4247 original size:11 final size:11

Alignment explanation


    Indices: 4231--4255  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

       4221 GGGGAATAAT

                       
       4231 CAATCCAAAAA
          1 CAATCCAAAAA

                       
       4242 CAATCCAAAAA
          1 CAATCCAAAAA

               
       4253 CAA
          1 CAA

       4256 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:7671 original size:76 final size:76

Alignment explanation


    Indices: 7521--7664  Score: 168
    Period size: 76  Copynumber: 1.9  Consensus size: 76

       7511 ACAAGGTCCC

                                                               *        *  * 
       7521 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGTACCCATGTGGTTTGCTTGAGAACCTAGGT
          1 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGTACCCATGTGGTTTGCCTGAGAACCCAGAT

                       
       7586 GGGCAGTGTCA
         66 GGGCAGTGTCA

                    *     *              *                            **     
       7597 CGACTCCAGCTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCCA
          1 CGACTCCACCTGGGCGCCCACATGG-TTGCCTTG-AGTACCCATGTGGTTT-GCCTGAGAACCCA

                  
       7659 GATGGG
         63 GATGGG

       7665 TTGTGTCTTA


Statistics
Matches: 57,  Mismatches: 8, Indels: 6
        0.80            0.11        0.08

Matches are distributed among these distances:
  75    4  0.07
  76   47  0.82
  77    6  0.11

ACGTcount: A:0.17, C:0.28, G:0.29, T:0.25


Consensus pattern (76 bp):   
CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGTACCCATGTGGTTTGCCTGAGAACCCAGAT
GGGCAGTGTCA
Done.