Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021999.1 Corchorus olitorius cultivar O-4 contig22032, 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: 8744
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30


Found at i:2374 original size:6 final size:6

Alignment explanation


    Indices: 2363--2392  Score: 60
    Period size: 6  Copynumber: 5.0  Consensus size: 6

       2353 TCTTTGCATA

                                              
       2363 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
          1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT

       2393 ATTTTTACAC


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

Matches are distributed among these distances:
   6   24  1.00

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (6 bp):   
TTTAAT

Found at i:4814 original size:19 final size:18

Alignment explanation


    Indices: 4781--4816  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       4771 TTGAAATTTT

                              
       4781 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
       4799 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

       4817 TAAGTCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA

Found at i:6048 original size:24 final size:24

Alignment explanation


    Indices: 6019--6065  Score: 94
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       6009 GGGAAATTAA

                                    
       6019 GATCAATCAAAAACAATCAAATTC
          1 GATCAATCAAAAACAATCAAATTC

                                   
       6043 GATCAATCAAAAACAATCAAATT
          1 GATCAATCAAAAACAATCAAATT

       6066 ATATCCTAGG


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   23  1.00

ACGTcount: A:0.55, C:0.19, G:0.04, T:0.21


Consensus pattern (24 bp):   
GATCAATCAAAAACAATCAAATTC
Done.