Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011838.1 Corchorus olitorius cultivar O-4 contig11871, 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: 11970
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34


Found at i:1325 original size:13 final size:14

Alignment explanation


    Indices: 1300--1329  Score: 53
    Period size: 13  Copynumber: 2.2  Consensus size: 14

       1290 ATATATGATA

                          
       1300 AGGTTGAAAACAAT
          1 AGGTTGAAAACAAT

                          
       1314 AGGTTG-AAACAAT
          1 AGGTTGAAAACAAT

               
       1327 AGG
          1 AGG

       1330 AATCAATCTT


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

Matches are distributed among these distances:
  13   10  0.62
  14    6  0.38

ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20


Consensus pattern (14 bp):   
AGGTTGAAAACAAT

Found at i:11302 original size:19 final size:19

Alignment explanation


    Indices: 11252--11302  Score: 61
    Period size: 19  Copynumber: 2.7  Consensus size: 19

      11242 TGTGGGATTT

                               
      11252 TTAATAA-TAATTATTCAA
          1 TTAATAATTAATTATTCAA

              *              *  
      11270 TAAAATAATT-ATTATTTAA
          1 T-TAATAATTAATTATTCAA

                          
      11289 TTAATAATTAATTA
          1 TTAATAATTAATTA

      11303 ATTTCAGTCC


Statistics
Matches: 27,  Mismatches: 3, Indels: 5
        0.77            0.09        0.14

Matches are distributed among these distances:
  18    8  0.30
  19   18  0.67
  20    1  0.04

ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47


Consensus pattern (19 bp):   
TTAATAATTAATTATTCAA
Done.