Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004896.1 Corchorus capsularis cultivar CVL-1 contig04914, 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: 6516
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30


Found at i:2626 original size:53 final size:53

Alignment explanation


    Indices: 2490--2642  Score: 204
    Period size: 53  Copynumber: 2.9  Consensus size: 53

       2480 CATTTATAAG

                  *                 *                              
       2490 TCCCTAGACACAGAGGCAATTCTATATCAAAAGTCCTCAAACACAAGGGTATTCA
          1 TCCCTAAACACAGAGGC-A-TCTACATCAAAAGTCCTCAAACACAAGGGTATTCA

                               *   *                               
       2545 TCCCTAAACACAG-GGACACCTTTC-TCAAAAGTCCTCAAACACAAGGGTATTCA
          1 TCCCTAAACACAGAGG-CATC-TACATCAAAAGTCCTCAAACACAAGGGTATTCA

                                                  *       
       2598 TCCCTAAACACAGAGGCATCTACATC-AAAGTCCTCAAGCACAAGG
          1 TCCCTAAACACAGAGGCATCTACATCAAAAGTCCTCAAACACAAGG

       2643 ACATCTATAT


Statistics
Matches: 87,  Mismatches: 7, Indels: 11
        0.83            0.07        0.10

Matches are distributed among these distances:
  52   20  0.23
  53   48  0.55
  54    6  0.07
  55   13  0.15

ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20


Consensus pattern (53 bp):   
TCCCTAAACACAGAGGCATCTACATCAAAAGTCCTCAAACACAAGGGTATTCA

Found at i:2658 original size:30 final size:30

Alignment explanation


    Indices: 2598--2691  Score: 104
    Period size: 30  Copynumber: 3.1  Consensus size: 30

       2588 AGGGTATTCA

                                   *  *    
       2598 TCCCTAAACACAGAGG-CATCTACATCAAAG
          1 TCCCTAAACACA-AGGACATCTATATTAAAG

                    *                      
       2628 T-CCTCAAGCACAAGGACATCTATATTAAAG
          1 TCCCT-AAACACAAGGACATCTATATTAAAG

                                     *     
       2658 TCCCTAAACAC-AGAGACATCTATACTAAAG
          1 TCCCTAAACACAAG-GACATCTATATTAAAG

                
       2688 TCCC
          1 TCCC

       2692 CAAATACATA


Statistics
Matches: 55,  Mismatches: 5, Indels: 8
        0.81            0.07        0.12

Matches are distributed among these distances:
  29    8  0.15
  30   44  0.80
  31    3  0.05

ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20


Consensus pattern (30 bp):   
TCCCTAAACACAAGGACATCTATATTAAAG
Done.