Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010169.1 Corchorus capsularis cultivar CVL-1 contig10190, 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: 9469
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35


Found at i:8483 original size:32 final size:32

Alignment explanation


    Indices: 8442--8503  Score: 106
    Period size: 32  Copynumber: 1.9  Consensus size: 32

       8432 GGAGCATTTC

                                            
       8442 TTTATCTCACTTAGGGTTTACATATCATGTAT
          1 TTTATCTCACTTAGGGTTTACATATCATGTAT

                                *  *      
       8474 TTTATCTCACTTAGGGTTTAGATTTCATGT
          1 TTTATCTCACTTAGGGTTTACATATCATGT

       8504 CATGTCATTT


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  32   28  1.00

ACGTcount: A:0.23, C:0.15, G:0.15, T:0.48


Consensus pattern (32 bp):   
TTTATCTCACTTAGGGTTTACATATCATGTAT

Found at i:8651 original size:170 final size:170

Alignment explanation


    Indices: 8369--8686  Score: 564
    Period size: 170  Copynumber: 1.9  Consensus size: 170

       8359 AATTTTGACT

                            *         *                                      
       8369 CCACTTTTTATGACATTGAATGTTGACATTTAGACTATCTCACTTAGGGTTTAATATAGTTTTGG
          1 CCACTTTTTATGACATAGAATGTTGAAATTTAGACTATCTCACTTAGGGTTTAATATAGTTTTGG

                 *                                                           
       8434 AGCATTTCTTTATCTCACTTAGGGTTTACATATCATGTATTTTATCTCACTTAGGGTTTAGATTT
         66 AGCATATCTTTATCTCACTTAGGGTTTACATATCATGTATTTTATCTCACTTAGGGTTTAGATTT

                                                    
       8499 CATGTCATGTCATTTTTTGTTTCAAATTTTGACTCTTCCA
        131 CATGTCATGTCATTTTTTGTTTCAAATTTTGACTCTTCCA

                                                  *                          
       8539 CCACTTTTTATGACATAGAATGTTGAAATTTAGACTATTTCACTTAGGGTTTAATATAGTTTTGG
          1 CCACTTTTTATGACATAGAATGTTGAAATTTAGACTATCTCACTTAGGGTTTAATATAGTTTTGG

            *                *          *                                    
       8604 GGCATATCTTTATCTCATTTAGGGTTTATATATCATGTATTTTATCTCACTTAGGGTTTAGATTT
         66 AGCATATCTTTATCTCACTTAGGGTTTACATATCATGTATTTTATCTCACTTAGGGTTTAGATTT

            *                 
       8669 TATGTCATGTCATTTTTT
        131 CATGTCATGTCATTTTTT

       8687 TTGTCTCTCA


Statistics
Matches: 140,  Mismatches: 8, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
 170  140  1.00

ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47


Consensus pattern (170 bp):   
CCACTTTTTATGACATAGAATGTTGAAATTTAGACTATCTCACTTAGGGTTTAATATAGTTTTGG
AGCATATCTTTATCTCACTTAGGGTTTACATATCATGTATTTTATCTCACTTAGGGTTTAGATTT
CATGTCATGTCATTTTTTGTTTCAAATTTTGACTCTTCCA

Found at i:9388 original size:2 final size:2

Alignment explanation


    Indices: 9383--9410  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

       9373 CGTGTGTGTG

                                                     
       9383 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       9411 CACATCTTAT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

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


Consensus pattern (2 bp):   
TA

Done.