Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023899.1 Corchorus olitorius cultivar O-4 contig23932, 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: 16469
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33


Found at i:10307 original size:35 final size:36

Alignment explanation


    Indices: 10233--10308  Score: 86
    Period size: 36  Copynumber: 2.1  Consensus size: 36

      10223 ACACATTGCC

                          *             *       
      10233 TCCATCATGCATTTGTCATTCACTTGTATATATGCA
          1 TCCATCATGCATTTATCATTCACTTGTAAATATGCA

                                    *             
      10269 TCCATCATGCA-TTATCATTGTCATTTGTAAATA-G-A
          1 TCCATCATGCATTTATCA-T-TCACTTGTAAATATGCA

                 
      10304 TCCAT
          1 TCCAT

      10309 TTTATTTTTA


Statistics
Matches: 35,  Mismatches: 3, Indels: 5
        0.81            0.07        0.12

Matches are distributed among these distances:
  35   11  0.31
  36   13  0.37
  37   11  0.31

ACGTcount: A:0.28, C:0.21, G:0.11, T:0.41


Consensus pattern (36 bp):   
TCCATCATGCATTTATCATTCACTTGTAAATATGCA

Found at i:11388 original size:6 final size:7

Alignment explanation


    Indices: 11373--11413  Score: 55
    Period size: 7  Copynumber: 5.6  Consensus size: 7

      11363 TCCCATCAGC

                   
      11373 AAAAGAA
          1 AAAAGAA

                   
      11380 AAAAGAA
          1 AAAAGAA

                   * 
      11387 AAGCAAGCA
          1 AA--AAGAA

                   
      11396 AAAAGAA
          1 AAAAGAA

                   
      11403 AAAAGAA
          1 AAAAGAA

                
      11410 AAAA
          1 AAAA

      11414 AATGTGAAAG


Statistics
Matches: 30,  Mismatches: 2, Indels: 4
        0.83            0.06        0.11

Matches are distributed among these distances:
   7   24  0.80
   9    6  0.20

ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00


Consensus pattern (7 bp):   
AAAAGAA
Done.