Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005654.1 Corchorus capsularis cultivar CVL-1 contig05672, 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: 3024
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32


Found at i:1993 original size:89 final size:88

Alignment explanation


    Indices: 1829--2076  Score: 308
    Period size: 89  Copynumber: 2.8  Consensus size: 88

       1819 AAAACTAATC

                *             *                 *                  *         
       1829 GATTTACCGAATCAAT-CTGAACTGTTTGAAATGTGTTGCACCGAGCTCACCGAACCCAATC-TT
          1 GATTCACCGAATC-ATCCCGAACTGTTTGAAATGTGCTGCACCGAGCTCACCGAATCCAATCTTT

                                   *   
       1892 GAAGAAATAATGCACCGCATCT-TCTT
         65 GAAG--ATAATGCACCGCAT-TAACTT

                                             *                               
       1918 GATTCACCGAATCATCCCGAACTGTTTGAGAATTTGCTGCACCGAGCTCACCGAATTCCAATCTT
          1 GATTCACCGAATCATCCCGAACTGTTTGA-AATGTGCTGCACCGAGCTCACCGAA-TCCAATCTT

                                     
       1983 TGAAGA-AATGCACCGCATTAACTT
         64 TGAAGATAATGCACCGCATTAACTT

                       *           *                            *            
       2007 GATTCACCGAACCATCCCGAACTATTTGAAAATGTGCTGCACCGAGCTCACCAAATCCAA-CTTT
          1 GATTCACCGAATCATCCCGAACTGTTTG-AAATGTGCTGCACCGAGCTCACCGAATCCAATCTTT

            *     
       2071 AAAGAT
         65 GAAGAT

       2077 GCTACACCGA


Statistics
Matches: 141,  Mismatches: 11, Indels: 15
        0.84            0.07        0.09

Matches are distributed among these distances:
  87    8  0.06
  88    8  0.06
  89   88  0.62
  90   25  0.18
  91    6  0.04
  92    6  0.04

ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26


Consensus pattern (88 bp):   
GATTCACCGAATCATCCCGAACTGTTTGAAATGTGCTGCACCGAGCTCACCGAATCCAATCTTTG
AAGATAATGCACCGCATTAACTT
Done.