Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009714.1 Corchorus olitorius cultivar O-4 contig09746, 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: 4229
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35


Found at i:485 original size:13 final size:14

Alignment explanation


    Indices: 446--497  Score: 58
    Period size: 13  Copynumber: 3.9  Consensus size: 14

        436 TATTCAATCT

                           
        446 TTATATATATTGATA
          1 TTATATATATT-ATA

                    *     
        461 --ATA-ATGTTATA
          1 TTATATATATTATA

                          
        472 TTATAT-TATTATA
          1 TTATATATATTATA

                         
        485 TTATATATATTAT
          1 TTATATATATTAT

        498 CAATAAACTT


Statistics
Matches: 31,  Mismatches: 2, Indels: 9
        0.74            0.05        0.21

Matches are distributed among these distances:
  11    3  0.10
  12    4  0.13
  13   18  0.58
  14    6  0.19

ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56


Consensus pattern (14 bp):   
TTATATATATTATA

Found at i:720 original size:16 final size:16

Alignment explanation


    Indices: 653--720  Score: 59
    Period size: 16  Copynumber: 4.2  Consensus size: 16

        643 CTACCCGAGA

                            
        653 CCGAACCCGAAAATAC
          1 CCGAACCCGAAAATAC

            *   * *         
        669 TCGAGCTCGAAAATAC
          1 CCGAACCCGAAAATAC

                        *     
        685 CCGAACCCGACTTAAT--
          1 CCGAACCCGA--AAATAC

                         *  
        701 CCGAACCCGAAAAGAC
          1 CCGAACCCGAAAATAC

                
        717 CCGA
          1 CCGA

        721 GCCCACCCAA


Statistics
Matches: 39,  Mismatches: 9, Indels: 8
        0.70            0.16        0.14

Matches are distributed among these distances:
  14    2  0.05
  16   34  0.87
  18    3  0.08

ACGTcount: A:0.38, C:0.35, G:0.16, T:0.10


Consensus pattern (16 bp):   
CCGAACCCGAAAATAC
Done.