Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014299.1 Corchorus olitorius cultivar O-4 contig14332, 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: 30507
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:11417 original size:74 final size:73

Alignment explanation


    Indices: 11278--11416  Score: 181
    Period size: 74  Copynumber: 1.9  Consensus size: 73

      11268 ATAGATGCCT

                             *         * *   ** *        *             *     
      11278 TTTATGTTCTAAAGCCTTAAAATTGTTTATAGATTTTGGATTTTGTCAAGGAGAAAGAGTAAAAA
          1 TTTATGTTCTAAAGCCTCAAAATTGTTAACAGAAATAGGATTTTGGCAA-GAGAAAGAGAAAAAA

                     
      11343 ACAGACGCC
         65 ACAGACGCC

                                                                             
      11352 TTTATGTTCTAAAGCCTCAAAATTGTTGAACAGAAATAGGATTTTGGCAA-AGAAAGAGAAAAAA
          1 TTTATGTTCTAAAGCCTCAAAATTGTT-AACAGAAATAGGATTTTGGCAAGAGAAAGAGAAAAAA

             
      11416 A
         65 A

      11417 AAAAAGATAC


Statistics
Matches: 56,  Mismatches: 8, Indels: 3
        0.84            0.12        0.04

Matches are distributed among these distances:
  73   14  0.25
  74   26  0.46
  75   16  0.29

ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30


Consensus pattern (73 bp):   
TTTATGTTCTAAAGCCTCAAAATTGTTAACAGAAATAGGATTTTGGCAAGAGAAAGAGAAAAAAA
CAGACGCC

Found at i:11619 original size:7 final size:7

Alignment explanation


    Indices: 11588--11637  Score: 57
    Period size: 7  Copynumber: 7.0  Consensus size: 7

      11578 CTCACCCTGC

                   
      11588 CATGGCT
          1 CATGGCT

                    
      11595 -ATTGGCT
          1 CA-TGGCT

                    
      11602 CATGGGCT
          1 CAT-GGCT

                 * 
      11610 CATGGGT
          1 CATGGCT

                   
      11617 CATGGCT
          1 CATGGCT

            *      
      11624 AATGGCT
          1 CATGGCT

                   
      11631 CATGGCT
          1 CATGGCT

      11638 GGCTGGTTTT


Statistics
Matches: 36,  Mismatches: 4, Indels: 6
        0.78            0.09        0.13

Matches are distributed among these distances:
   6    1  0.03
   7   27  0.75
   8    8  0.22

ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30


Consensus pattern (7 bp):   
CATGGCT

Done.