Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018228.1 Corchorus olitorius cultivar O-4 contig18261, 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: 8104
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33


Found at i:1568 original size:15 final size:16

Alignment explanation


    Indices: 1535--1574  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       1525 TTACTTTGCT

                            
       1535 TTGTTTTCTAGTATAA
          1 TTGTTTTCTAGTATAA

                        *   
       1551 TTGTTTTCT-GTTTAA
          1 TTGTTTTCTAGTATAA

               *     
       1566 TTGCTTTCT
          1 TTGTTTTCT

       1575 TTCAACCTCT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.15, C:0.10, G:0.12, T:0.62


Consensus pattern (16 bp):   
TTGTTTTCTAGTATAA

Found at i:2170 original size:18 final size:18

Alignment explanation


    Indices: 2143--2178  Score: 63
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       2133 CTACTAACAA

                              
       2143 TTTTTCTTTTGAGTTTTT
          1 TTTTTCTTTTGAGTTTTT

                 *            
       2161 TTTTTTTTTTGAGTTTTT
          1 TTTTTCTTTTGAGTTTTT

       2179 CTAGGAAGCT


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

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.06, C:0.03, G:0.11, T:0.81


Consensus pattern (18 bp):   
TTTTTCTTTTGAGTTTTT

Found at i:5153 original size:21 final size:21

Alignment explanation


    Indices: 5129--5177  Score: 53
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       5119 CCATTCACCA

                        *        
       5129 TGCCATCACCGGTTAAGCCCG
          1 TGCCATCACCGGCTAAGCCCG

                **         *   * 
       5150 TGCCGCCACCGGCTATGCCTG
          1 TGCCATCACCGGCTAAGCCCG

                   
       5171 TGCCATC
          1 TGCCATC

       5178 GCCATTCCAA


Statistics
Matches: 21,  Mismatches: 7, Indels: 0
        0.75            0.25        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.14, C:0.41, G:0.24, T:0.20


Consensus pattern (21 bp):   
TGCCATCACCGGCTAAGCCCG
Done.