Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010234.1 Corchorus capsularis cultivar CVL-1 contig10255, 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: 27427
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33


Found at i:3157 original size:114 final size:114

Alignment explanation


    Indices: 2957--3176  Score: 388
    Period size: 114  Copynumber: 1.9  Consensus size: 114

       2947 ATTCTATATG

                          *                                                  
       2957 ATCTTTTTGAAGACTTTACTAAATCTATTAATAGTTACCTTCATAGACTTAAACCAAGTAATAAC
          1 ATCTTTTTGAAGACATTACTAAATCTATTAATAGTTACCTTCATAGACTTAAACCAAGTAATAAC

             *                                               
       3022 ATATCCATTCTAATCCAATACGGAATCAAGTGATTAAGTCACTCTCTAC
         66 AAATCCATTCTAATCCAATACGGAATCAAGTGATTAAGTCACTCTCTAC

                                  *                                          
       3071 ATCTTTTTGAAGACATTACTAATTCTATTAATAGTT-CGCTTCATAGACTTAAACCAAGTAATAA
          1 ATCTTTTTGAAGACATTACTAAATCTATTAATAGTTAC-CTTCATAGACTTAAACCAAGTAATAA

                      *                               
       3135 CAAATCCATTTTAATCCAATACGGAATCAAGTGATTAAGTCA
         65 CAAATCCATTCTAATCCAATACGGAATCAAGTGATTAAGTCA

       3177 TTCTATATTT


Statistics
Matches: 101,  Mismatches: 4, Indels: 2
        0.94            0.04        0.02

Matches are distributed among these distances:
 113    1  0.01
 114  100  0.99

ACGTcount: A:0.38, C:0.19, G:0.10, T:0.34


Consensus pattern (114 bp):   
ATCTTTTTGAAGACATTACTAAATCTATTAATAGTTACCTTCATAGACTTAAACCAAGTAATAAC
AAATCCATTCTAATCCAATACGGAATCAAGTGATTAAGTCACTCTCTAC

Found at i:18790 original size:23 final size:23

Alignment explanation


    Indices: 18755--18804  Score: 55
    Period size: 23  Copynumber: 2.2  Consensus size: 23

      18745 CATGTTCATT

                *        *       * 
      18755 AACACTAAATGAATACGTTAATG
          1 AACAATAAATGAACACGTTAACG

                    *      *       
      18778 AACAATAATTGAACATGTTAACG
          1 AACAATAAATGAACACGTTAACG

                
      18801 AACA
          1 AACA

      18805 CCTATATAGT


Statistics
Matches: 22,  Mismatches: 5, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  23   22  1.00

ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24


Consensus pattern (23 bp):   
AACAATAAATGAACACGTTAACG
Done.