Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022915.1 Corchorus olitorius cultivar O-4 contig22948, 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: 3730
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36


Found at i:885 original size:15 final size:17

Alignment explanation


    Indices: 865--901  Score: 60
    Period size: 15  Copynumber: 2.3  Consensus size: 17

        855 TCTCTTCTTT

                             
        865 TTTTTGTTTTTT-TTG-
          1 TTTTTGTTTTTTATTGA

                             
        880 TTTTTGTTTTTTATTGA
          1 TTTTTGTTTTTTATTGA

                 
        897 TTTTT
          1 TTTTT

        902 TATTTGAATT


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  15   12  0.60
  16    3  0.15
  17    5  0.25

ACGTcount: A:0.05, C:0.00, G:0.11, T:0.84


Consensus pattern (17 bp):   
TTTTTGTTTTTTATTGA

Found at i:1806 original size:76 final size:74

Alignment explanation


    Indices: 1702--1845  Score: 198
    Period size: 76  Copynumber: 1.9  Consensus size: 74

       1692 CAATCACCTT

                    *                                            *           
       1702 GAAATCATTGCTTTGACAAAAACTGATTTTGAAACATCTTTTGATTAAAACACCGTCATTCCTTT
          1 GAAATCATAGCTTTGACAAAAACTGATTTTGAAA-ATCTTTTGATTAAAACACAG-CATTCCTTT

                       
       1767 GCTCACAGCTA
         64 GCTCACAGCTA

                      *      *    *             *        *    *              
       1778 GAAATCATAGTTTTGACTAAAATTGATTTTGAAAATTTTTTGATTCAAACTCAGCATTCCTTTGC
          1 GAAATCATAGCTTTGACAAAAACTGATTTTGAAAATCTTTTGATTAAAACACAGCATTCCTTTGC

               
       1843 TCA
         66 TCA

       1846 TAGTCCAGAT


Statistics
Matches: 60,  Mismatches: 8, Indels: 2
        0.86            0.11        0.03

Matches are distributed among these distances:
  74   14  0.23
  75   16  0.27
  76   30  0.50

ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38


Consensus pattern (74 bp):   
GAAATCATAGCTTTGACAAAAACTGATTTTGAAAATCTTTTGATTAAAACACAGCATTCCTTTGC
TCACAGCTA
Done.