Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022942.1 Corchorus olitorius cultivar O-4 contig22975, 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: 8828
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34


Found at i:2128 original size:2 final size:2

Alignment explanation


    Indices: 2121--2176  Score: 64
    Period size: 2  Copynumber: 29.0  Consensus size: 2

       2111 TTCGTACTTT

                               *                                *          
       2121 TA TA TA TA GTA TA GA TA TA TA TA TA TA TA TA TA TA AA TA TA -A
          1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA

                                   
       2163 TA TA -A TA TA -A TA TA
          1 TA TA TA TA TA TA TA TA

       2177 ATTTTTTTGA


Statistics
Matches: 46,  Mismatches: 4, Indels: 8
        0.79            0.07        0.14

Matches are distributed among these distances:
   1    3  0.07
   2   41  0.89
   3    2  0.04

ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43


Consensus pattern (2 bp):   
TA

Found at i:2645 original size:5 final size:5

Alignment explanation


    Indices: 2635--2671  Score: 65
    Period size: 5  Copynumber: 7.2  Consensus size: 5

       2625 GACGCATCAG

                                                        
       2635 TATAA TATAA TATAA TATAA TATAA TATAAA TATAA T
          1 TATAA TATAA TATAA TATAA TATAA TAT-AA TATAA T

       2672 TTTAAACTAC


Statistics
Matches: 31,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   5   26  0.84
   6    5  0.16

ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41


Consensus pattern (5 bp):   
TATAA

Done.