Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002205.1 Corchorus olitorius cultivar O-4 contig02205, 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: 1732
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36


Found at i:1174 original size:107 final size:104

Alignment explanation


    Indices: 1004--1259  Score: 397
    Period size: 107  Copynumber: 2.4  Consensus size: 104

        994 TTTAGCCTTG

                                                                   *         
       1004 ATTTCACTAAGTTTAGCCCCAAATTAAAATTTTATTTTTATTTTAAGGGTAAATTTCAAAATTAA
          1 ATTTCACTAAGTTTAG-CCCAAATTAAAATTTTATTTTTATTTTAAGGGTAAATTCCAAAATTAA

                                                      
       1069 TAATTTATTGTTATAGGGTTTTAGAAATAAAATACAAAACTA
         65 TAA--TATTGTTATAGGGTTTTAGAAATAAAATACAAAACTA

                                                                      *      
       1111 ATTTCACTAAGTTTAGCCCGAAATTAAAATTTTATTTTTATTTTAAGGGTAAATTCCATAATTAA
          1 ATTTCACTAAGTTTAGCCC-AAATTAAAATTTTATTTTTATTTTAAGGGTAAATTCCAAAATTAA

                                            * *     
       1176 TAATATTGTTATAGGGTTTTAGAAATAAAATATATAACTA
         65 TAATATTGTTATAGGGTTTTAGAAATAAAATACAAAACTA

                            *             ** *           
       1216 A-TTCACTAAGTTTAGTCCAAATTAAAATTAAAATTTTATTTTAA
          1 ATTTCACTAAGTTTAGCCCAAATTAAAATTTTATTTTTATTTTAA

       1260 AGGTTAGAAA


Statistics
Matches: 140,  Mismatches: 8, Indels: 6
        0.91            0.05        0.04

Matches are distributed among these distances:
 103   23  0.16
 104   16  0.11
 105   36  0.26
 106    3  0.02
 107   62  0.44

ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42


Consensus pattern (104 bp):   
ATTTCACTAAGTTTAGCCCAAATTAAAATTTTATTTTTATTTTAAGGGTAAATTCCAAAATTAAT
AATATTGTTATAGGGTTTTAGAAATAAAATACAAAACTA
Done.