Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001465.1 Corchorus olitorius cultivar O-4 contig01465, 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, 727

Length: 1212
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38


Found at i:504 original size:11 final size:11

Alignment explanation


    Indices: 485--518  Score: 50
    Period size: 11  Copynumber: 3.1  Consensus size: 11

        475 TTTTTCTGTT

                *      
        485 TTTTATTTTTG
          1 TTTTGTTTTTG

                     * 
        496 TTTTGTTTTCG
          1 TTTTGTTTTTG

                       
        507 TTTTGTTTTTG
          1 TTTTGTTTTTG

             
        518 T
          1 T

        519 GGCGCCGTCA


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  11   20  1.00

ACGTcount: A:0.03, C:0.03, G:0.15, T:0.79


Consensus pattern (11 bp):   
TTTTGTTTTTG

Found at i:916 original size:36 final size:36

Alignment explanation


    Indices: 869--944  Score: 152
    Period size: 36  Copynumber: 2.1  Consensus size: 36

        859 CTAATAAACC

                                                
        869 ATTGTAAAACATTAATGTAGTTTATTTGTTTTGACA
          1 ATTGTAAAACATTAATGTAGTTTATTTGTTTTGACA

                                                
        905 ATTGTAAAACATTAATGTAGTTTATTTGTTTTGACA
          1 ATTGTAAAACATTAATGTAGTTTATTTGTTTTGACA

                
        941 ATTG
          1 ATTG

        945 GATATCTTTA


Statistics
Matches: 40,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  36   40  1.00

ACGTcount: A:0.33, C:0.05, G:0.14, T:0.47


Consensus pattern (36 bp):   
ATTGTAAAACATTAATGTAGTTTATTTGTTTTGACA

Found at i:1184 original size:2 final size:2

Alignment explanation


    Indices: 1177--1212  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

       1167 CAGTTTCAAC

                                                                 
       1177 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Done.