Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008465.1 Corchorus olitorius cultivar O-4 contig08492, 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, 883

Length: 1472
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30


Found at i:720 original size:17 final size:17

Alignment explanation


    Indices: 700--748  Score: 80
    Period size: 17  Copynumber: 2.9  Consensus size: 17

        690 ATAATCTTTG

                 *           
        700 ATCACCGGTGATCTTGC
          1 ATCACTGGTGATCTTGC

                             
        717 ATCACTGGTGATCTTGC
          1 ATCACTGGTGATCTTGC

                  *        
        734 ATCACTAGTGATCTT
          1 ATCACTGGTGATCTT

        749 AGATTACTAG


Statistics
Matches: 30,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   30  1.00

ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35


Consensus pattern (17 bp):   
ATCACTGGTGATCTTGC

Found at i:757 original size:17 final size:17

Alignment explanation


    Indices: 707--762  Score: 78
    Period size: 17  Copynumber: 3.3  Consensus size: 17

        697 TTGATCACCG

                            *
        707 GTGATCTTGCATCACTG
          1 GTGATCTTGCATCACTA

                             
        724 GTGATCTTGCATCACTA
          1 GTGATCTTGCATCACTA

                         *    
        741 GTGATCTTAG-ATTACTA
          1 GTGATCTT-GCATCACTA

                 
        758 GTGAT
          1 GTGAT

        763 TTGGGGTGAT


Statistics
Matches: 36,  Mismatches: 2, Indels: 2
        0.90            0.05        0.05

Matches are distributed among these distances:
  17   35  0.97
  18    1  0.03

ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38


Consensus pattern (17 bp):   
GTGATCTTGCATCACTA

Found at i:1006 original size:15 final size:15

Alignment explanation


    Indices: 986--1015  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

        976 AATGCAACAG

                           
        986 ATTATCTAAATATAT
          1 ATTATCTAAATATAT

                    *      
       1001 ATTATCTATATATAT
          1 ATTATCTAAATATAT

       1016 GGCAAATATA


Statistics
Matches: 14,  Mismatches: 1, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50


Consensus pattern (15 bp):   
ATTATCTAAATATAT
Done.