Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01016714.1 Corchorus olitorius cultivar O-4 contig16747, 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: 2472
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29


Found at i:1218 original size:23 final size:23

Alignment explanation


    Indices: 1155--1220  Score: 78
    Period size: 23  Copynumber: 2.9  Consensus size: 23

       1145 TTTATGAAAA

                      **           
       1155 ACGCAAAAACCTTTTTTTTTATG
          1 ACGCAAAAACAATTTTTTTTATG

                 *      **         
       1178 ACGCAGAAACAAAATTTTTTATG
          1 ACGCAAAAACAATTTTTTTTATG

                     *          
       1201 ACGCAAAAATAATTTTTTTT
          1 ACGCAAAAACAATTTTTTTT

       1221 TCGATGCAAA


Statistics
Matches: 34,  Mismatches: 9, Indels: 0
        0.79            0.21        0.00

Matches are distributed among these distances:
  23   34  1.00

ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39


Consensus pattern (23 bp):   
ACGCAAAAACAATTTTTTTTATG

Found at i:1627 original size:16 final size:15

Alignment explanation


    Indices: 1587--1628  Score: 57
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       1577 ACGGAGATTG

                   *       
       1587 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

               *           
       1602 ACATAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
       1617 ACTAGAAAACAA
          1 AC-AGAAAACAA

       1629 AGCAAAGTAA


Statistics
Matches: 23,  Mismatches: 3, Indels: 1
        0.85            0.11        0.04

Matches are distributed among these distances:
  15   15  0.65
  16    8  0.35

ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14


Consensus pattern (15 bp):   
ACAGAAAACAATTAA

Found at i:2402 original size:11 final size:11

Alignment explanation


    Indices: 2386--2411  Score: 52
    Period size: 11  Copynumber: 2.4  Consensus size: 11

       2376 CCTTTGCCTA

                       
       2386 AAAACTAGAAG
          1 AAAACTAGAAG

                       
       2397 AAAACTAGAAG
          1 AAAACTAGAAG

                
       2408 AAAA
          1 AAAA

       2412 GAAATTATCT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   15  1.00

ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08


Consensus pattern (11 bp):   
AAAACTAGAAG
Done.