Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009905.1 Corchorus capsularis cultivar CVL-1 contig09926, 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: 17770
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34


Found at i:1249 original size:21 final size:21

Alignment explanation


    Indices: 1210--1249  Score: 55
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1200 ATTGATAAAA

                         *       
       1210 GTATAACATTTTTCATAATCG
          1 GTATAACATTTTTAATAATCG

                                
       1231 GTATAAC-TTTTTAAGTAAT
          1 GTATAACATTTTTAA-TAAT

       1250 ATTATATAAG


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20    6  0.35
  21   11  0.65

ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45


Consensus pattern (21 bp):   
GTATAACATTTTTAATAATCG

Found at i:7387 original size:29 final size:30

Alignment explanation


    Indices: 7326--7390  Score: 78
    Period size: 29  Copynumber: 2.2  Consensus size: 30

       7316 AAAAATGGCC

                            **    *     * 
       7326 TATTTGGCTGAAAGTAGGAGTTTAGGGGTT
          1 TATTTGGCTGAAAGTAAAAGTTCAGGGGCT

                      *                   
       7356 TATTTGGCTGCAA-TAAAAGTTCAGGGGCT
          1 TATTTGGCTGAAAGTAAAAGTTCAGGGGCT

                  
       7385 TATTTG
          1 TATTTG

       7391 ATGGTTGGGT


Statistics
Matches: 30,  Mismatches: 5, Indels: 1
        0.83            0.14        0.03

Matches are distributed among these distances:
  29   18  0.60
  30   12  0.40

ACGTcount: A:0.25, C:0.08, G:0.31, T:0.37


Consensus pattern (30 bp):   
TATTTGGCTGAAAGTAAAAGTTCAGGGGCT
Done.