Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001924.1 Corchorus olitorius cultivar O-4 contig01924, 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: 3740
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:621 original size:13 final size:13

Alignment explanation


    Indices: 606--653  Score: 51
    Period size: 13  Copynumber: 3.5  Consensus size: 13

        596 ACGAGTTTCG

                        *
        606 AAATCATTTTTGG
          1 AAATCATTTTTGA

                         * 
        619 AAATCAATTTTATCA
          1 AAATC-ATTTT-TGA

                 *       
        634 AAATCTTTTTTGA
          1 AAATCATTTTTGA

                   
        647 AAATCAT
          1 AAATCAT

        654 GACTCTTTTG


Statistics
Matches: 28,  Mismatches: 5, Indels: 4
        0.76            0.14        0.11

Matches are distributed among these distances:
  13   13  0.46
  14    9  0.32
  15    6  0.21

ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44


Consensus pattern (13 bp):   
AAATCATTTTTGA

Found at i:727 original size:15 final size:13

Alignment explanation


    Indices: 703--747  Score: 54
    Period size: 13  Copynumber: 3.3  Consensus size: 13

        693 TTCCAAGTGC

                 *        
        703 TTTTTCCATTTTCT
          1 TTTTTTCATTTT-T

                          
        717 GTTTTTTCATTTTT
          1 -TTTTTTCATTTTT

             *           
        731 TCTTTTCATTTTT
          1 TTTTTTCATTTTT

                
        744 TTTT
          1 TTTT

        748 GCATTATTGG


Statistics
Matches: 27,  Mismatches: 3, Indels: 2
        0.84            0.09        0.06

Matches are distributed among these distances:
  13   15  0.56
  14    1  0.04
  15   11  0.41

ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78


Consensus pattern (13 bp):   
TTTTTTCATTTTT

Found at i:3165 original size:22 final size:23

Alignment explanation


    Indices: 3140--3187  Score: 80
    Period size: 22  Copynumber: 2.1  Consensus size: 23

       3130 TAATAGTTGA

                                   
       3140 ATTTTTACATGGCACC-TTTTGC
          1 ATTTTTACATGGCACCTTTTTGC

                  *                
       3162 ATTTTTGCATGGCACCTTTTTGC
          1 ATTTTTACATGGCACCTTTTTGC

               
       3185 ATT
          1 ATT

       3188 CATCCTTTTA


Statistics
Matches: 24,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  22   15  0.62
  23    9  0.38

ACGTcount: A:0.17, C:0.21, G:0.15, T:0.48


Consensus pattern (23 bp):   
ATTTTTACATGGCACCTTTTTGC

Done.