Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009113.1 Corchorus capsularis cultivar CVL-1 contig09134, 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: 21913
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31


Found at i:13640 original size:7 final size:7

Alignment explanation


    Indices: 13628--13657  Score: 60
    Period size: 7  Copynumber: 4.3  Consensus size: 7

      13618 TTTGTTTGTT

                   
      13628 TCTCTAC
          1 TCTCTAC

                   
      13635 TCTCTAC
          1 TCTCTAC

                   
      13642 TCTCTAC
          1 TCTCTAC

                   
      13649 TCTCTAC
          1 TCTCTAC

              
      13656 TC
          1 TC

      13658 ATAGTGAAGT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   23  1.00

ACGTcount: A:0.13, C:0.43, G:0.00, T:0.43


Consensus pattern (7 bp):   
TCTCTAC

Found at i:15039 original size:77 final size:80

Alignment explanation


    Indices: 14902--15048  Score: 212
    Period size: 77  Copynumber: 1.9  Consensus size: 80

      14892 ATGCTGACTT

                            *    *            *                              
      14902 TGTTAGTAATTTGTTTTTTTAGTCATTTCATTAATTATATGTTTATTATAGTTTATTTATTTGGT
          1 TGTTAGT-ATTTGTTTATTTAATCATTTCATTAAGTATATGTTTATTATAGTTTATTTATTTGGT

            *               
      14967 TATTTTTTACTATAGA
         65 CATTTTTTACTATAGA

                                                                             
      14983 TGTTAGT-TTTGTTTATTTAATCATTTCATT-AGT-TATGTTTATTATAGTTTGA-TTATTTGGT
          1 TGTTAGTATTTGTTTATTTAATCATTTCATTAAGTATATGTTTATTATAGTTT-ATTTATTTGGT

                 
      15044 CATTT
         65 CATTT

      15049 CTCATTAAAG


Statistics
Matches: 61,  Mismatches: 4, Indels: 6
        0.86            0.06        0.08

Matches are distributed among these distances:
  77   30  0.49
  78    3  0.05
  79   21  0.34
  81    7  0.11

ACGTcount: A:0.23, C:0.04, G:0.12, T:0.61


Consensus pattern (80 bp):   
TGTTAGTATTTGTTTATTTAATCATTTCATTAAGTATATGTTTATTATAGTTTATTTATTTGGTC
ATTTTTTACTATAGA

Found at i:16011 original size:3 final size:3

Alignment explanation


    Indices: 16003--16029  Score: 54
    Period size: 3  Copynumber: 9.0  Consensus size: 3

      15993 TAATTCCCCC

                                               
      16003 TAA TAA TAA TAA TAA TAA TAA TAA TAA
          1 TAA TAA TAA TAA TAA TAA TAA TAA TAA

      16030 AATGACTAAA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   24  1.00

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (3 bp):   
TAA

Done.