Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010098.1 Corchorus olitorius cultivar O-4 contig10130, 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: 3694
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30


Found at i:359 original size:55 final size:55

Alignment explanation


    Indices: 295--405  Score: 186
    Period size: 55  Copynumber: 2.0  Consensus size: 55

        285 CAAAATCGGT

                                              *                    
        295 TCAAATCAGTCCCCAAAATCAATTTAAGTCCCTATCATCTTTTGATTTATCAGTC
          1 TCAAATCAGTCCCCAAAATCAATTTAAGTCCCTACCATCTTTTGATTTATCAGTC

                                             *  *             *    
        350 TCAAATCAGTCCCCAAAATCAATTTAAGTCCCTGCCGTCTTTTGATTTATTAGTC
          1 TCAAATCAGTCCCCAAAATCAATTTAAGTCCCTACCATCTTTTGATTTATCAGTC

             
        405 T
          1 T

        406 GTCAATCTGA


Statistics
Matches: 52,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  55   52  1.00

ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37


Consensus pattern (55 bp):   
TCAAATCAGTCCCCAAAATCAATTTAAGTCCCTACCATCTTTTGATTTATCAGTC

Found at i:1343 original size:14 final size:14

Alignment explanation


    Indices: 1324--1355  Score: 55
    Period size: 14  Copynumber: 2.3  Consensus size: 14

       1314 GTATACTAGT

                          
       1324 AAATTTCATTATTC
          1 AAATTTCATTATTC

                         *
       1338 AAATTTCATTATTT
          1 AAATTTCATTATTC

                
       1352 AAAT
          1 AAAT

       1356 GAATGGAAGG


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   17  1.00

ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50


Consensus pattern (14 bp):   
AAATTTCATTATTC

Found at i:1628 original size:2 final size:2

Alignment explanation


    Indices: 1621--1652  Score: 64
    Period size: 2  Copynumber: 16.0  Consensus size: 2

       1611 CATGAAATGC

                                                           
       1621 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

       1653 CACACATTAA


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   30  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Done.