Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014303.1 Corchorus capsularis cultivar CVL-1 contig14324, 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: 23269
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32


Found at i:18909 original size:16 final size:19

Alignment explanation


    Indices: 18888--18923  Score: 51
    Period size: 16  Copynumber: 2.1  Consensus size: 19

      18878 TGTCTTCTAG

                               
      18888 ACTAAT-TAA-ATA-AATA
          1 ACTAATCTAAGATAGAATA

                               
      18904 ACTAATCTAAGATAGAATA
          1 ACTAATCTAAGATAGAATA

             
      18923 A
          1 A

      18924 AGGCCCAATT


Statistics
Matches: 17,  Mismatches: 0, Indels: 3
        0.85            0.00        0.15

Matches are distributed among these distances:
  16    6  0.35
  17    3  0.18
  18    3  0.18
  19    5  0.29

ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28


Consensus pattern (19 bp):   
ACTAATCTAAGATAGAATA

Found at i:22133 original size:166 final size:167

Alignment explanation


    Indices: 21850--22163  Score: 495
    Period size: 166  Copynumber: 1.9  Consensus size: 167

      21840 CAATGCCAGC

                                                         **                  
      21850 GATCTTGCTCCCGAAACCACTCTATAGCCATGGGTTTTTTTTTTTTTAATCTTCTTCCTTTCCTC
          1 GATCTTGCTCCCGAAACCACTCTATAGCCATGGG------TTTTTCCAATCTTCTTCCTTTCCTC

                 *           *                                               
      21915 TTGAATGAATGTTGCAATAATATCTTTATTCAAGAAAAACAAACCAATTTCTTCCATGGCTTCAA
         60 TTGAACGAATGTTGCAAAAATATCTTTATTCAAGAAAAACAAACCAATTTCTTCCATGGCTTCAA

                                                       
      21980 CTTCCCAAAGGATCAGATTTATGCGAAATTTTGATAAGCGGAT
        125 CTTCCCAAAGGATCAGATTTATGCGAAATTTTGATAAGCGGAT

                                                                             
      22023 GATCTTGCTCCCGAAACCACTCTATAGCCATGGG-TTTTCCAATCTTCTTCCTTTCCTCTTGAAC
          1 GATCTTGCTCCCGAAACCACTCTATAGCCATGGGTTTTTCCAATCTTCTTCCTTTCCTCTTGAAC

                *                                  *                         
      22087 GAATTTTGCAAAAATATCTTTATTCAAGAAAAACAAACCCATTTCTTCCATGGCTTCAACTTCCC
         66 GAATGTTGCAAAAATATCTTTATTCAAGAAAAACAAACCAATTTCTTCCATGGCTTCAACTTCCC

              * *       
      22152 AATGTATCAGAT
        131 AAAGGATCAGAT

      22164 ATTCAGATTT


Statistics
Matches: 133,  Mismatches: 8, Indels: 7
        0.90            0.05        0.05

Matches are distributed among these distances:
 166   99  0.74
 173   34  0.26

ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36


Consensus pattern (167 bp):   
GATCTTGCTCCCGAAACCACTCTATAGCCATGGGTTTTTCCAATCTTCTTCCTTTCCTCTTGAAC
GAATGTTGCAAAAATATCTTTATTCAAGAAAAACAAACCAATTTCTTCCATGGCTTCAACTTCCC
AAAGGATCAGATTTATGCGAAATTTTGATAAGCGGAT
Done.