Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015975.1 Corchorus olitorius cultivar O-4 contig16008, 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: 4324
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31


Found at i:950 original size:15 final size:15

Alignment explanation


    Indices: 920--961  Score: 75
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        910 TTACTTTGTT

                            
        920 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
        936 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

                       
        951 TTGTTTTCTGT
          1 TTGTTTTCTGT

        962 CAACCTCTGT


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  15   17  0.65
  16    9  0.35

ACGTcount: A:0.12, C:0.07, G:0.14, T:0.67


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:3290 original size:27 final size:27

Alignment explanation


    Indices: 3260--3327  Score: 68
    Period size: 28  Copynumber: 2.5  Consensus size: 27

       3250 ATTTAAAGGC

                                   *    
       3260 AAAACTGTAATTTAG-TCAACCAGGGGT
          1 AAAACTGTAATTTAGCT-AACCAAGGGT

                               *         
       3287 AAAA-TGGTAATTTTAGCTGACCAAGGGT
          1 AAAACT-GTAA-TTTAGCTAACCAAGGGT

                 *       
       3315 AAAACAGTAATTT
          1 AAAACTGTAATTT

       3328 TGACATCTTA


Statistics
Matches: 34,  Mismatches: 3, Indels: 8
        0.76            0.07        0.18

Matches are distributed among these distances:
  26    1  0.03
  27   11  0.32
  28   21  0.62
  29    1  0.03

ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28


Consensus pattern (27 bp):   
AAAACTGTAATTTAGCTAACCAAGGGT
Done.