Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020263.1 Corchorus olitorius cultivar O-4 contig20296, 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: 3590
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33


Found at i:689 original size:15 final size:16

Alignment explanation


    Indices: 669--700  Score: 57
    Period size: 15  Copynumber: 2.1  Consensus size: 16

        659 ATATTTCAAG

                            
        669 TGCTTTTTTTCT-TTT
          1 TGCTTTTTTTCTCTTT

                            
        684 TGCTTTTTTTCTCTTT
          1 TGCTTTTTTTCTCTTT

             
        700 T
          1 T

        701 TCTCTCTTTT


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15   12  0.75
  16    4  0.25

ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78


Consensus pattern (16 bp):   
TGCTTTTTTTCTCTTT

Found at i:1203 original size:73 final size:73

Alignment explanation


    Indices: 1108--1251  Score: 227
    Period size: 73  Copynumber: 2.0  Consensus size: 73

       1098 CAGTCACCTT

                *                                     *  *        *          
       1108 GAAATCATTGGTTTGACTAAAACTGATTTTGAAACATCTTTTGATTAAAACTCATC-TTCCCTTT
          1 GAAACCATTGGTTTGACTAAAACTGATTTTGAAACATCTTTTAATCAAAACTCACCATT-CCTTT

                     
       1172 GCTCACACC
         65 GCTCACACC

                      *                                                      
       1181 GAAACCATTGTTTTGACTAAAACTGATTTTGAAACATCTTTTAATCAAAACTCACCATTCCTTTG
          1 GAAACCATTGGTTTGACTAAAACTGATTTTGAAACATCTTTTAATCAAAACTCACCATTCCTTTG

                  
       1246 CTCACA
         66 CTCACA

       1252 GTCCAGATAA


Statistics
Matches: 65,  Mismatches: 5, Indels: 2
        0.90            0.07        0.03

Matches are distributed among these distances:
  73   63  0.97
  74    2  0.03

ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36


Consensus pattern (73 bp):   
GAAACCATTGGTTTGACTAAAACTGATTTTGAAACATCTTTTAATCAAAACTCACCATTCCTTTG
CTCACACC
Done.