Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008016.1 Corchorus olitorius cultivar O-4 contig08043, 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, 778

Length: 1298
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25


Found at i:221 original size:16 final size:15

Alignment explanation


    Indices: 200--246  Score: 53
    Period size: 16  Copynumber: 3.1  Consensus size: 15

        190 TAGAATAGGC

                           
        200 AATCAATCAAAGCAA
          1 AATCAATCAAAGCAA

                      *     
        215 TAATCAATCAGAGCAA
          1 -AATCAATCAAAGCAA

                            
        231 AA-CAATGCAAAG-AA
          1 AATCAAT-CAAAGCAA

              
        245 AA
          1 AA

        247 AGTAAATGGA


Statistics
Matches: 28,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  14    8  0.29
  15    6  0.21
  16   14  0.50

ACGTcount: A:0.60, C:0.17, G:0.11, T:0.13


Consensus pattern (15 bp):   
AATCAATCAAAGCAA

Found at i:1241 original size:21 final size:21

Alignment explanation


    Indices: 1198--1241  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       1188 TCCTTTGTTG

                              *  
       1198 ATGATCTCCAATGGGCTTCAA
          1 ATGATCTCCAATGGGCTTAAA

                     *            
       1219 ATGATCTCCGAT-GGCTTTAAA
          1 ATGATCTCCAATGGGC-TTAAA

              
       1240 AT
          1 AT

       1242 TCTTCAAGAT


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  20    3  0.15
  21   17  0.85

ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32


Consensus pattern (21 bp):   
ATGATCTCCAATGGGCTTAAA
Done.