Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007230.1 Corchorus olitorius cultivar O-4 contig07255, 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, 845

Length: 1409
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33


Found at i:214 original size:20 final size:22

Alignment explanation


    Indices: 189--235  Score: 62
    Period size: 24  Copynumber: 2.1  Consensus size: 22

        179 GGAAAGCGAA

                                  
        189 AATCAA-TTT-GGCCATACGGT
          1 AATCAACTTTAGGCCATACGGT

                                    
        209 AATCAAGCTTTGAGGCCATACGGT
          1 AATCAA-CTTT-AGGCCATACGGT

               
        233 AAT
          1 AAT

        236 AAAACTGCAA


Statistics
Matches: 23,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  20    6  0.26
  22    3  0.13
  24   14  0.61

ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28


Consensus pattern (22 bp):   
AATCAACTTTAGGCCATACGGT

Found at i:643 original size:24 final size:24

Alignment explanation


    Indices: 615--713  Score: 117
    Period size: 24  Copynumber: 4.1  Consensus size: 24

        605 AATCACACGG

                         *         *
        615 CCACATAGTGGTCATGAGAAACGG
          1 CCACATAGTGGTCGTGAGAAACGA

                   *   *       **   
        639 CCACATAATGGCCGTGAGATTCGA
          1 CCACATAGTGGTCGTGAGAAACGA

                  *                 
        663 CCACATGGTGGTCGTGAGAAACGA
          1 CCACATAGTGGTCGTGAGAAACGA

                  *              *  
        687 CCACATGGTGGTCGTGAGAAAAGA
          1 CCACATAGTGGTCGTGAGAAACGA

               
        711 CCA
          1 CCA

        714 ATGCTACACA


Statistics
Matches: 63,  Mismatches: 12, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  24   63  1.00

ACGTcount: A:0.31, C:0.22, G:0.29, T:0.17


Consensus pattern (24 bp):   
CCACATAGTGGTCGTGAGAAACGA

Done.