Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023354.1 Corchorus olitorius cultivar O-4 contig23387, 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: 5685
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38


Found at i:1218 original size:23 final size:23

Alignment explanation


    Indices: 1191--1257  Score: 125
    Period size: 23  Copynumber: 2.9  Consensus size: 23

       1181 AAATCTTATA

                    *              
       1191 ATTAATTATAAGGGCTGAAACTT
          1 ATTAATTACAAGGGCTGAAACTT

                                   
       1214 ATTAATTACAAGGGCTGAAACTT
          1 ATTAATTACAAGGGCTGAAACTT

                                 
       1237 ATTAATTACAAGGGCTGAAAC
          1 ATTAATTACAAGGGCTGAAAC

       1258 ATGCTCCTTG


Statistics
Matches: 43,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  23   43  1.00

ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30


Consensus pattern (23 bp):   
ATTAATTACAAGGGCTGAAACTT

Found at i:3461 original size:31 final size:31

Alignment explanation


    Indices: 3423--3484  Score: 97
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       3413 GAGTTTTGTA

                    *                      
       3423 AAACTTTTGAATCACCTATTATACCCTTATT
          1 AAACTTTTAAATCACCTATTATACCCTTATT

                         *          *      
       3454 AAACTTTTAAATCGCCTATTATACTCTTATT
          1 AAACTTTTAAATCACCTATTATACCCTTATT

       3485 TTTCGAATAT


Statistics
Matches: 28,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  31   28  1.00

ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44


Consensus pattern (31 bp):   
AAACTTTTAAATCACCTATTATACCCTTATT

Found at i:3615 original size:84 final size:84

Alignment explanation


    Indices: 3521--3689  Score: 284
    Period size: 84  Copynumber: 2.0  Consensus size: 84

       3511 TGTTTAAATT

                        * *                                                  
       3521 TTTATAGTTTTAGTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTAT
          1 TTTATAGTTTTACTAAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTAT

                          *    
       3586 TTTATATTTACCATTTTAC
         66 TTTATATTTACCATATTAC

                                                                        *    
       3605 TTTATAGTTTTACTAAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATACCTAT
          1 TTTATAGTTTTACTAAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTAT

                 *     *       
       3670 TTTATTTTTACGATATTAC
         66 TTTATATTTACCATATTAC

             
       3689 T
          1 T

       3690 AATCTATACT


Statistics
Matches: 79,  Mismatches: 6, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  84   79  1.00

ACGTcount: A:0.34, C:0.13, G:0.02, T:0.50


Consensus pattern (84 bp):   
TTTATAGTTTTACTAAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATAACTAT
TTTATATTTACCATATTAC
Done.