Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003512.1 Corchorus capsularis cultivar CVL-1 contig03520, 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, 635

Length: 1059
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40


Found at i:444 original size:104 final size:104

Alignment explanation


    Indices: 264--470  Score: 396
    Period size: 104  Copynumber: 2.0  Consensus size: 104

        254 GTGAGTTTAT

                                                                             
        264 TTGTAATTTGTTTATTTATGTATTTAATAGGTAGGTAGTTTATTTATGGGCATAGAGATTTATTT
          1 TTGTAATTTGTTTATTTATGTATTTAATAGGTAGGTAGTTTATTTATGGGCATAGAGATTTATTT

                                   *               
        329 GAATTGTAATGAGATTTCATTGGGTTTATTTGTTGGCTA
         66 GAATTGTAATGAGATTTCATTGGATTTATTTGTTGGCTA

                                             *                               
        368 TTGTAATTTGTTTATTTATGTATTTAATAGGTATGTAGTTTATTTATGGGCATAGAGATTTATTT
          1 TTGTAATTTGTTTATTTATGTATTTAATAGGTAGGTAGTTTATTTATGGGCATAGAGATTTATTT

                                                  
        433 GAATTGTAATGAGATTTCATTGGATTTATTTGTTGGCT
         66 GAATTGTAATGAGATTTCATTGGATTTATTTGTTGGCT

        471 CATAGATTAG


Statistics
Matches: 101,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 104  101  1.00

ACGTcount: A:0.25, C:0.03, G:0.21, T:0.51


Consensus pattern (104 bp):   
TTGTAATTTGTTTATTTATGTATTTAATAGGTAGGTAGTTTATTTATGGGCATAGAGATTTATTT
GAATTGTAATGAGATTTCATTGGATTTATTTGTTGGCTA

Found at i:551 original size:41 final size:41

Alignment explanation


    Indices: 504--585  Score: 146
    Period size: 41  Copynumber: 2.0  Consensus size: 41

        494 TGCTAATCAT

                                                *    
        504 GTAGCGGTCTACGGGTCTTCCTGTGCGTTTGTAATCTCAAA
          1 GTAGCGGTCTACGGGTCTTCCTGTGCGTTTGTAATCCCAAA

                    *                                
        545 GTAGCGGTGTACGGGTCTTCCTGTGCGTTTGTAATCCCAAA
          1 GTAGCGGTCTACGGGTCTTCCTGTGCGTTTGTAATCCCAAA

        586 TCAAGAAATG


Statistics
Matches: 39,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  41   39  1.00

ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33


Consensus pattern (41 bp):   
GTAGCGGTCTACGGGTCTTCCTGTGCGTTTGTAATCCCAAA
Done.