Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013180.1 Corchorus olitorius cultivar O-4 contig13213, 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: 3734
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:961 original size:15 final size:15

Alignment explanation


    Indices: 931--972  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        921 TTACTTTGCT

                            
        931 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
        947 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

               *       
        962 TTGCTTTCTGT
          1 TTGTTTTCTGT

        973 CAATCTCTGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:1392 original size:37 final size:34

Alignment explanation


    Indices: 1335--1408  Score: 103
    Period size: 36  Copynumber: 2.1  Consensus size: 34

       1325 TGCGTTTTTG

                           *                   
       1335 AAAAAAAATTTTGTTTTGCGTTTTCTAAAAAAAAA
          1 AAAAAAAATTTTGTTCTGCGTTTT-TAAAAAAAAA

                                        *       
       1370 AAAAAAAATTCTTGTTCCTGCGTTTTTAGAAAAAAA
          1 AAAAAAAATT-TTGTT-CTGCGTTTTTAAAAAAAAA

               
       1406 AAA
          1 AAA

       1409 TTCTTTTATT


Statistics
Matches: 35,  Mismatches: 2, Indels: 3
        0.88            0.05        0.08

Matches are distributed among these distances:
  35   10  0.29
  36   17  0.49
  37    8  0.23

ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34


Consensus pattern (34 bp):   
AAAAAAAATTTTGTTCTGCGTTTTTAAAAAAAAA
Done.