Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001473.1 Corchorus capsularis cultivar CVL-1 contig01473, 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, 903

Length: 1506
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.39


Found at i:89 original size:15 final size:15

Alignment explanation


    Indices: 65--94  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

         55 CGACCCGCTG

                           
         65 TTCTTCTTCTTCTTT
          1 TTCTTCTTCTTCTTT

                 *         
         80 TTCTTTTTCTTCTTT
          1 TTCTTCTTCTTCTTT

         95 ATAGGCTTTT


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77


Consensus pattern (15 bp):   
TTCTTCTTCTTCTTT

Found at i:1255 original size:83 final size:78

Alignment explanation


    Indices: 1046--1297  Score: 344
    Period size: 78  Copynumber: 3.2  Consensus size: 78

       1036 TTGTTTAGGT

                                *                 *         *   *   *        
       1046 TTTTA-TAGTTTTACTCAACAAAAAACTCTATTTTTATTTAATTAAATATAACATCTTTATAACT
          1 TTTTACTA-TTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATCTAATATCCTTATAACT

               *          
       1110 ATTTTATTTTACCA
         65 ATTATATTTTACCA

                                                                             
       1124 TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATCTAATATCCTTATAACTA
          1 TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATCTAATATCCTTATAACTA

                         
       1189 TTATATTTTACCA
         66 TTATATTTTACCA

                         *                                         *  *      
       1202 TTTTACTATTTTATTCAACTAAAAACTCTATTTTAATTTTATATAATTAAATCTATTAACCTTAT
          1 TTTTACTATTTTACTCAACTAAAAACTCTA---T--TTTTATATAATTAAATCTAATATCCTTAT

                           ** 
       1267 AACTATTATATTTTAATA
         61 AACTATTATATTTTACCA

                         
       1285 TTTTACTATTTTA
          1 TTTTACTATTTTA

       1298 ATTAAAAAAA


Statistics
Matches: 157,  Mismatches: 11, Indels: 7
        0.90            0.06        0.04

Matches are distributed among these distances:
  78   98  0.62
  79    2  0.01
  81    1  0.01
  83   56  0.36

ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50


Consensus pattern (78 bp):   
TTTTACTATTTTACTCAACTAAAAACTCTATTTTTATATAATTAAATCTAATATCCTTATAACTA
TTATATTTTACCA

Found at i:1422 original size:23 final size:23

Alignment explanation


    Indices: 1393--1436  Score: 61
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       1383 AAACTTTTGC

                       *           
       1393 AATTGAAAACACTATTTTTATTT
          1 AATTGAAAACAATATTTTTATTT

                   **            
       1416 AATTGAATTCAATATTTTTAT
          1 AATTGAAAACAATATTTTTAT

       1437 AATTATTTTA


Statistics
Matches: 18,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  23   18  1.00

ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50


Consensus pattern (23 bp):   
AATTGAAAACAATATTTTTATTT
Done.