Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012000.1 Corchorus capsularis cultivar CVL-1 contig12021, 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: 14735
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33


Found at i:9575 original size:21 final size:21

Alignment explanation


    Indices: 9509--9569  Score: 95
    Period size: 21  Copynumber: 2.9  Consensus size: 21

       9499 TCCGCCTCAG

                  *   *          
       9509 AATCAGACTCCGCCGCTCGAC
          1 AATCAGCCTCTGCCGCTCGAC

                        *        
       9530 AATCAGCCTCTGTCGCTCGAC
          1 AATCAGCCTCTGCCGCTCGAC

                               
       9551 AATCAGCCTCTGCCGCTCG
          1 AATCAGCCTCTGCCGCTCG

       9570 TAAATCCGGC


Statistics
Matches: 36,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   36  1.00

ACGTcount: A:0.20, C:0.41, G:0.20, T:0.20


Consensus pattern (21 bp):   
AATCAGCCTCTGCCGCTCGAC

Found at i:9847 original size:144 final size:144

Alignment explanation


    Indices: 9590--10000  Score: 655
    Period size: 144  Copynumber: 2.9  Consensus size: 144

       9580 ACAACCTACG

                 *   *     *     *                                           
       9590 GAAGAAGATCAGTTTGTTGATTGTTTGGATGAATTTGTTGAAGAAGCTAGGGACG---AATATGA
          1 GAAGATGATGAGTTTTTTGATGGTTTGGATGAATTTGTTGAAGAAGCTAGGGACGAATAATATGA

                                                                 *           
       9652 GTACCTTGATGGTTTGGGTGAACTTTTTCACGATCAGGAACCTGATGTCAAAAACCAAACCGCAC
         66 GTACCTTGATGGTTTGGGTGAACTTTTTCACGATCAGGAACCTGATGTCAAAACCCAAACCGCAC

                          
       9717 AAGGCGATGAAGAA
        131 AAGGCGATGAAGAA

                              *                                              
       9731 GAAGATGATGAGTTTTTTTATGGTTTGGATGAATTTGTTGAAGAAGCTAGGGACGAATAATATGA
          1 GAAGATGATGAGTTTTTTGATGGTTTGGATGAATTTGTTGAAGAAGCTAGGGACGAATAATATGA

                                          *                                  
       9796 GTACCTTGATGGTTTGGGTGAACTTTTTCATGATCAGGAACCTGATGTCAAAACCCAAACCGCAC
         66 GTACCTTGATGGTTTGGGTGAACTTTTTCACGATCAGGAACCTGATGTCAAAACCCAAACCGCAC

                          
       9861 AAGGCGATGAAGAA
        131 AAGGCGATGAAGAA

                                  *                                         *
       9875 GAAGATGATGAGTTTTTTGATGATTTGGATGAATTTGTT---G-A---A-GGACGAATAATATGT
          1 GAAGATGATGAGTTTTTTGATGGTTTGGATGAATTTGTTGAAGAAGCTAGGGACGAATAATATGA

                                                             *               
       9932 GTACCTTGATGGTTTGGGTGAACTTTTTCACGATCAGGAACCTGATGTCGAAACCCAAACCGCAC
         66 GTACCTTGATGGTTTGGGTGAACTTTTTCACGATCAGGAACCTGATGTCAAAACCCAAACCGCAC

                
       9997 AAGG
        131 AAGG

      10001 ACCTCTCCCG


Statistics
Matches: 255,  Mismatches: 12, Indels: 11
        0.92            0.04        0.04

Matches are distributed among these distances:
 136   81  0.32
 137    1  0.00
 140    1  0.00
 141   51  0.20
 144  121  0.47

ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29


Consensus pattern (144 bp):   
GAAGATGATGAGTTTTTTGATGGTTTGGATGAATTTGTTGAAGAAGCTAGGGACGAATAATATGA
GTACCTTGATGGTTTGGGTGAACTTTTTCACGATCAGGAACCTGATGTCAAAACCCAAACCGCAC
AAGGCGATGAAGAA

Done.