Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004268.1 Corchorus capsularis cultivar CVL-1 contig04276, 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: 2746
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:1178 original size:42 final size:42

Alignment explanation


    Indices: 1119--1206  Score: 176
    Period size: 42  Copynumber: 2.1  Consensus size: 42

       1109 GTTAGCAGTT

                                                      
       1119 CAATCTACAATCAATCATCACGATACTAATTCGTAATTAAAC
          1 CAATCTACAATCAATCATCACGATACTAATTCGTAATTAAAC

                                                      
       1161 CAATCTACAATCAATCATCACGATACTAATTCGTAATTAAAC
          1 CAATCTACAATCAATCATCACGATACTAATTCGTAATTAAAC

                
       1203 CAAT
          1 CAAT

       1207 GTAAGGTGAA


Statistics
Matches: 46,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  42   46  1.00

ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28


Consensus pattern (42 bp):   
CAATCTACAATCAATCATCACGATACTAATTCGTAATTAAAC

Found at i:1720 original size:200 final size:200

Alignment explanation


    Indices: 1377--1777  Score: 757
    Period size: 200  Copynumber: 2.0  Consensus size: 200

       1367 AAATTATGGT

                                                                             
       1377 ACCCTGAATGATGAATCCCAAAGAATCCGGGGTGGGGGTACTTATGACTTATGAACATGGCGCAT
          1 ACCCTGAATGATGAATCCCAAAGAATCCGGGGTGGGGGTACTTATGACTTATGAACATGGCGCAT

                                           *           *                     
       1442 TTGGAGTGCGGTATATAAAAGTACATTAAATTCCCAAATTTAAGATTTTATTGAGATAGGATTTT
         66 TTGGAGTGCGGTATATAAAAGTACATTAAATCCCCAAATTTAAAATTTTATTGAGATAGGATTTT

                                                                      *      
       1507 AGAAAATTGATGAGTTGTTTTCATATTATTGGTTGGTCCCATAGATGACGTGGTGGGTTCGTCCC
        131 AGAAAATTGATGAGTTGTTTTCATATTATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCC

                 
       1572 ACCTA
        196 ACCTA

                                                       *          *          
       1577 ACCCTGAATGATGAATCCCAAAGAATCCGGGGTGGGGGTACTTGTGACTTATGAGCATGGCGCAT
          1 ACCCTGAATGATGAATCCCAAAGAATCCGGGGTGGGGGTACTTATGACTTATGAACATGGCGCAT

                                                                             
       1642 TTGGAGTGCGGTATATAAAAGTACATTAAATCCCCAAATTTAAAATTTTATTGAGATAGGATTTT
         66 TTGGAGTGCGGTATATAAAAGTACATTAAATCCCCAAATTTAAAATTTTATTGAGATAGGATTTT

                                                                             
       1707 AGAAAATTGATGAGTTGTTTTCATATTATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCC
        131 AGAAAATTGATGAGTTGTTTTCATATTATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCC

                 
       1772 ACCTA
        196 ACCTA

             
       1777 A
          1 A

       1778 TAATTTCTCA


Statistics
Matches: 196,  Mismatches: 5, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 200  196  1.00

ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32


Consensus pattern (200 bp):   
ACCCTGAATGATGAATCCCAAAGAATCCGGGGTGGGGGTACTTATGACTTATGAACATGGCGCAT
TTGGAGTGCGGTATATAAAAGTACATTAAATCCCCAAATTTAAAATTTTATTGAGATAGGATTTT
AGAAAATTGATGAGTTGTTTTCATATTATTGGTTGGTCCCATAGATGACGTGGTGGGTCCGTCCC
ACCTA
Done.