Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015365.1 Corchorus capsularis cultivar CVL-1 contig15386, 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: 5044
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36


Found at i:517 original size:20 final size:20

Alignment explanation


    Indices: 492--555  Score: 71
    Period size: 20  Copynumber: 3.3  Consensus size: 20

        482 TTAAGGTTCA

                             *  
        492 ACATTTAGTTTTTCCTACTG
          1 ACATTTAGTTTTTCCTATTG

                                *
        512 ACATTT--TTTTTCC-ATTCA
          1 ACATTTAGTTTTTCCTATT-G

                     *          
        530 ACATTTAGTATTTCCTATTG
          1 ACATTTAGTTTTTCCTATTG

                  
        550 ACATTT
          1 ACATTT

        556 TTGTTTTGGA


Statistics
Matches: 36,  Mismatches: 4, Indels: 8
        0.75            0.08        0.17

Matches are distributed among these distances:
  17    2  0.06
  18   13  0.36
  20   18  0.50
  21    3  0.08

ACGTcount: A:0.23, C:0.19, G:0.06, T:0.52


Consensus pattern (20 bp):   
ACATTTAGTTTTTCCTATTG

Found at i:4372 original size:18 final size:17

Alignment explanation


    Indices: 4345--4380  Score: 63
    Period size: 18  Copynumber: 2.1  Consensus size: 17

       4335 TTTCTCTTCA

                             
       4345 TCTATTTTTCTTCTAGT
          1 TCTATTTTTCTTCTAGT

                              
       4362 TCTAGTTTTTCTTCTAGT
          1 TCTA-TTTTTCTTCTAGT

             
       4380 T
          1 T

       4381 TTAGGTTGTG


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  17    4  0.22
  18   14  0.78

ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64


Consensus pattern (17 bp):   
TCTATTTTTCTTCTAGT
Done.