Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006886.1 Corchorus olitorius cultivar O-4 contig06911, 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: 3981
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34


Found at i:542 original size:13 final size:13

Alignment explanation


    Indices: 524--548  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        514 AAATCACATC

                         
        524 ATATATATTGTAA
          1 ATATATATTGTAA

                        
        537 ATATATATTGTA
          1 ATATATATTGTA

        549 GTTGAGGCTG


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48


Consensus pattern (13 bp):   
ATATATATTGTAA

Found at i:3522 original size:91 final size:92

Alignment explanation


    Indices: 3403--3583  Score: 301
    Period size: 91  Copynumber: 2.0  Consensus size: 92

       3393 TTGACTCGCG

                                   *            * *                          
       3403 ACACAAACTCGATGACTCACAATTAAATATTTAAAATATATATAAATTCAAATTAAAAACTGTCA
          1 ACACAAACTCGATGACTCACAATAAAATATTTAAAACACATATAAATTCAAATTAAAAACTGTCA

                                       
       3468 TCATAGTTAGTTATCAATTAAATCTCC
         66 TCATAGTTAGTTATCAATTAAATCTCC

                       *                                    *                
       3495 ACAC-AACTCGGTGACTCACAATAAAATATTTAAAACACATATAAATTTAAATTAAAAACTGTCA
          1 ACACAAACTCGATGACTCACAATAAAATATTTAAAACACATATAAATTCAAATTAAAAACTGTCA

                 *                   
       3559 TCATATTTAGTTATCAATTAAATCT
         66 TCATAGTTAGTTATCAATTAAATCT

       3584 AAAGAAATCA


Statistics
Matches: 83,  Mismatches: 6, Indels: 1
        0.92            0.07        0.01

Matches are distributed among these distances:
  91   79  0.95
  92    4  0.05

ACGTcount: A:0.46, C:0.16, G:0.06, T:0.33


Consensus pattern (92 bp):   
ACACAAACTCGATGACTCACAATAAAATATTTAAAACACATATAAATTCAAATTAAAAACTGTCA
TCATAGTTAGTTATCAATTAAATCTCC
Done.