Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005835.1 Corchorus capsularis cultivar CVL-1 contig05853, 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: 1865
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34


Found at i:1693 original size:34 final size:33

Alignment explanation


    Indices: 1629--1694  Score: 87
    Period size: 34  Copynumber: 2.0  Consensus size: 33

       1619 GCGGCATTTT

                   *         *      **       
       1629 TATTAAAGAAACGCCGTGATATGGTGGCGTTTA
          1 TATTAAACAAACGCCGTCATATGGCAGCGTTTA

                                             
       1662 TATTGAAACAAACGCCGTCATATGGCAGCGTTT
          1 TATT-AAACAAACGCCGTCATATGGCAGCGTTT

       1695 CCCCTTAAAG


Statistics
Matches: 28,  Mismatches: 4, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  33    4  0.14
  34   24  0.86

ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29


Consensus pattern (33 bp):   
TATTAAACAAACGCCGTCATATGGCAGCGTTTA

Found at i:1709 original size:34 final size:33

Alignment explanation


    Indices: 1630--1711  Score: 83
    Period size: 34  Copynumber: 2.4  Consensus size: 33

       1620 CGGCATTTTT

                            *      **       *
       1630 ATTAAAGAAACGCCGTGATATGGTGGCGTTTAT
          1 ATTAAAGAAACGCCGTCATATGGCAGCGTTTAC

                   *                         * 
       1663 ATTGAAACAAACGCCGTCATATGGCAGCGTTTCCC
          1 ATT-AAAGAAACGCCGTCATATGGCAGCGTTT-AC

            *             
       1698 CTTAAAGAAACGCC
          1 ATTAAAGAAACGCC

       1712 CCTATATAGT


Statistics
Matches: 39,  Mismatches: 8, Indels: 3
        0.78            0.16        0.06

Matches are distributed among these distances:
  33    3  0.08
  34   34  0.87
  35    2  0.05

ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24


Consensus pattern (33 bp):   
ATTAAAGAAACGCCGTCATATGGCAGCGTTTAC
Done.