Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008889.1 Corchorus capsularis cultivar CVL-1 contig08910, 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: 7730
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33


Found at i:982 original size:23 final size:23

Alignment explanation


    Indices: 956--1137  Score: 73
    Period size: 23  Copynumber: 7.5  Consensus size: 23

        946 TCTTAAAAGG

                      *            
        956 ACTGTCTTCCGCTTATCCTTTGA
          1 ACTGTCTTCCACTTATCCTTTGA

                       *             * *
        979 ACTGTCTTCCAATTCCAT-CTTAAAAGG
          1 ACTGTCTTCCACTT--ATCCTT---TGA

              *       *            
       1006 ACCGTCTTCCGCTTATCCTTTGA
          1 ACTGTCTTCCACTTATCCTTTGA

                        *           * *
       1029 ACTGTCTTCCAATTTAT-CTTAAAAGG
          1 ACTGTCTTCC-ACTTATCCTT---TGA

              *       *            
       1055 ACCGTCTTCCGCTTATCCTTTGA
          1 ACTGTCTTCCACTTATCCTTTGA

             *         *            * *
       1078 ATTGTCTTCCAATTCAT-CTTAAAAGG
          1 ACTGTCTTCCACTT-ATCCTT---TGA

              *       *            
       1104 ACCGTCTTCCTCTTATCCTTTGA
          1 ACTGTCTTCCACTTATCCTTTGA

                       
       1127 ACTGTCTTCCA
          1 ACTGTCTTCCA

       1138 ATTCATCTTA


Statistics
Matches: 110,  Mismatches: 33, Indels: 32
        0.63            0.19        0.18

Matches are distributed among these distances:
  23   49  0.45
  24    9  0.08
  25   10  0.09
  26   30  0.27
  27   12  0.11

ACGTcount: A:0.21, C:0.29, G:0.12, T:0.39


Consensus pattern (23 bp):   
ACTGTCTTCCACTTATCCTTTGA

Found at i:1067 original size:49 final size:49

Alignment explanation


    Indices: 931--1176  Score: 429
    Period size: 49  Copynumber: 5.0  Consensus size: 49

        921 TTCTTCGAAT

                         *             *                      
        931 TGTCTTCCAATTTGATCTTAAAAGGACTGTCTTCCGCTTATCCTTTGAAC
          1 TGTCTTCCAA-TTCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAAC

                                                              
        981 TGTCTTCCAATTCCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAAC
          1 TGTCTTCCAATT-CATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAAC

                        *                                   *
       1031 TGTCTTCCAATTTATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAAT
          1 TGTCTTCCAATTCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAAC

                                              *              
       1080 TGTCTTCCAATTCATCTTAAAAGGACCGTCTTCCTCTTATCCTTTGAAC
          1 TGTCTTCCAATTCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAAC

                                                            
       1129 TGTCTTCCAATTCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAA
          1 TGTCTTCCAATTCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAA

       1177 TTGTTTCTGA


Statistics
Matches: 187,  Mismatches: 8, Indels: 3
        0.94            0.04        0.02

Matches are distributed among these distances:
  49  130  0.70
  50   57  0.30

ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39


Consensus pattern (49 bp):   
TGTCTTCCAATTCATCTTAAAAGGACCGTCTTCCGCTTATCCTTTGAAC

Done.