Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008637.1 Corchorus olitorius cultivar O-4 contig08664, 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, 697

Length: 1162
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30


Found at i:237 original size:20 final size:21

Alignment explanation


    Indices: 195--237  Score: 61
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        185 TCCTTTGTTG

                                 
        195 ATGATCTCCAATGGGCTTCAA
          1 ATGATCTCCAATGGGCTTCAA

                     *        *  
        216 ATGATCTCCGAT-GGCTTTAA
          1 ATGATCTCCAATGGGCTTCAA

              
        236 AT
          1 AT

        238 TCTTCAAGAT


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  20    9  0.45
  21   11  0.55

ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33


Consensus pattern (21 bp):   
ATGATCTCCAATGGGCTTCAA

Found at i:704 original size:33 final size:31

Alignment explanation


    Indices: 631--776  Score: 123
    Period size: 33  Copynumber: 4.5  Consensus size: 31

        621 GCTATGATCA

                                       ** * 
        631 ACCAAAACAGATTTGTTTTCATCACAATTAGC
          1 ACCAAAACAGATTTG-TTTCATCACAAACAAC

                                             
        663 ATCCAAAACAGAATTTGTTTCATCACAAACAAC
          1 A-CCAAAACAG-ATTTGTTTCATCACAAACAAC

                              *              
        696 ACCTAAAACAGATTTAGTGTCATCACAAACAAC
          1 ACC-AAAACAGATTT-GTTTCATCACAAACAAC

                   **  *             *        
        729 ACTCAAATTAGGTTTAGTATT-ATCGCAAACAAC
          1 AC-CAAAACAGATTT-GT-TTCATCACAAACAAC

               *           
        762 ATCTAAAACAGATTT
          1 A-CCAAAACAGATTT

        777 AGAATTACTC


Statistics
Matches: 94,  Mismatches: 13, Indels: 13
        0.78            0.11        0.11

Matches are distributed among these distances:
  32    7  0.07
  33   79  0.84
  34    8  0.09

ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27


Consensus pattern (31 bp):   
ACCAAAACAGATTTGTTTCATCACAAACAAC

Done.