Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010339.1 Corchorus capsularis cultivar CVL-1 contig10360, 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: 38374
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34


Found at i:5689 original size:12 final size:11

Alignment explanation


    Indices: 5651--5691  Score: 50
    Period size: 10  Copynumber: 3.8  Consensus size: 11

       5641 TTGAATTCAT

                *      
       5651 GTATGTATAGA
          1 GTATATATAGA

                       
       5662 G-ATATATAG-
          1 GTATATATAGA

                       
       5671 GTATATATAGA
          1 GTATATATAGA

                      
       5682 GTACTATATA
          1 GTA-TATATA

       5692 CATGAATATA


Statistics
Matches: 26,  Mismatches: 1, Indels: 5
        0.81            0.03        0.16

Matches are distributed among these distances:
   9    1  0.04
  10   15  0.58
  11    4  0.15
  12    6  0.23

ACGTcount: A:0.41, C:0.02, G:0.20, T:0.37


Consensus pattern (11 bp):   
GTATATATAGA

Found at i:37099 original size:140 final size:141

Alignment explanation


    Indices: 36846--37127  Score: 530
    Period size: 140  Copynumber: 2.0  Consensus size: 141

      36836 ATCAACCCGA

                                                                             
      36846 CTCGAATAAAGTCAACTTGTAAATATACCAAAAAAAAAAAACTTATAGGCATTTAAATGACTAAA
          1 CTCGAATAAAGTCAACTTGTAAATATACCAAAAAAAAAAAACTTATAGGCATTTAAATGACTAAA

                *                                              *             
      36911 ATCCTTTAAATAATTTTCTCTTTCATTTTTAAAGACATTTTGCATTTATAATACATTATTTTGTA
         66 ATCCCTTAAATAATTTTCTCTTTCATTTTTAAAGACATTTTGCATTTATAAAACATTATTTTGTA

                       
      36976 GTAATATATAC
        131 GTAATATATAC

                                          *                                  
      36987 CTCGAATAAAGTCAACTTGTAAATATACC-GAAAAAAAAAACTTATAGGCATTTAAATGACTAAA
          1 CTCGAATAAAGTCAACTTGTAAATATACCAAAAAAAAAAAACTTATAGGCATTTAAATGACTAAA

                                                                             
      37051 ATCCCTTAAATAATTTTCTCTTTCATTTTTAAAGACATTTTGCATTTATAAAACATTATTTTGTA
         66 ATCCCTTAAATAATTTTCTCTTTCATTTTTAAAGACATTTTGCATTTATAAAACATTATTTTGTA

                       
      37116 GTAATATATAC
        131 GTAATATATAC

             
      37127 C
          1 C

      37128 AAACACTCAA


Statistics
Matches: 138,  Mismatches: 3, Indels: 1
        0.97            0.02        0.01

Matches are distributed among these distances:
 140  109  0.79
 141   29  0.21

ACGTcount: A:0.41, C:0.13, G:0.07, T:0.38


Consensus pattern (141 bp):   
CTCGAATAAAGTCAACTTGTAAATATACCAAAAAAAAAAAACTTATAGGCATTTAAATGACTAAA
ATCCCTTAAATAATTTTCTCTTTCATTTTTAAAGACATTTTGCATTTATAAAACATTATTTTGTA
GTAATATATAC
Done.