Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007874.1 Corchorus olitorius cultivar O-4 contig07901, 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: 4314
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27


Found at i:1275 original size:51 final size:52

Alignment explanation


    Indices: 1199--1303  Score: 158
    Period size: 52  Copynumber: 2.0  Consensus size: 52

       1189 CTATGGGTTT

                 *                                       *      
       1199 GGTTAGGTCACGACACTCATGCCC-AAACGCCATTGGGCTCATTATTATTGC
          1 GGTTAAGTCACGACACTCATGCCCAAAACGCCATTGGGCTCATTACTATTGC

                     *                            *     *       
       1250 GGTTAAGTCGCGACACTCATGCCCAAAACGCCATTGGGTTCATTCCTATTGC
          1 GGTTAAGTCACGACACTCATGCCCAAAACGCCATTGGGCTCATTACTATTGC

              
       1302 GG
          1 GG

       1304 CCCAGAATTA


Statistics
Matches: 48,  Mismatches: 5, Indels: 1
        0.89            0.09        0.02

Matches are distributed among these distances:
  51   22  0.46
  52   26  0.54

ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27


Consensus pattern (52 bp):   
GGTTAAGTCACGACACTCATGCCCAAAACGCCATTGGGCTCATTACTATTGC

Found at i:3581 original size:6 final size:6

Alignment explanation


    Indices: 3541--3573  Score: 66
    Period size: 6  Copynumber: 5.5  Consensus size: 6

       3531 AACCCTAAAC

                                                  
       3541 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
          1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA

       3574 AAGAAAAAAG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   27  1.00

ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00


Consensus pattern (6 bp):   
AAAGAA
Done.