Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012719.1 Corchorus olitorius cultivar O-4 contig12752, 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, 951

Length: 1586
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34


Found at i:1463 original size:29 final size:29

Alignment explanation


    Indices: 1431--1488  Score: 89
    Period size: 29  Copynumber: 2.0  Consensus size: 29

       1421 GTGGAATAAT

                        *      *         
       1431 CAAATCTAACAATTATTGAGTAGAAAACA
          1 CAAATCTAACAAATATTGACTAGAAAACA

                          *              
       1460 CAAATCTAACAAATGTTGACTAGAAAACA
          1 CAAATCTAACAAATATTGACTAGAAAACA

       1489 TTTATATATA


Statistics
Matches: 26,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  29   26  1.00

ACGTcount: A:0.52, C:0.16, G:0.10, T:0.22


Consensus pattern (29 bp):   
CAAATCTAACAAATATTGACTAGAAAACA

Found at i:1498 original size:2 final size:2

Alignment explanation


    Indices: 1491--1516  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       1481 AGAAAACATT

                                                  
       1491 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

       1517 GAGAGAGAGA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

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


Consensus pattern (2 bp):   
TA

Found at i:1521 original size:2 final size:2

Alignment explanation


    Indices: 1516--1586  Score: 126
    Period size: 2  Copynumber: 36.0  Consensus size: 2

       1506 ATATATATAT

                                                                *         
       1516 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AT AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

                                                        
       1558 AG AG AG AG AG AG -G AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG


Statistics
Matches: 66,  Mismatches: 2, Indels: 2
        0.94            0.03        0.03

Matches are distributed among these distances:
   1    1  0.02
   2   65  0.98

ACGTcount: A:0.49, C:0.00, G:0.49, T:0.01


Consensus pattern (2 bp):   
AG

Done.