Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024915.1 Corchorus olitorius cultivar O-4 contig24948, 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: 16450
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:4101 original size:13 final size:13

Alignment explanation


    Indices: 4080--4112  Score: 50
    Period size: 13  Copynumber: 2.5  Consensus size: 13

       4070 CACGCGTCAT

                          
       4080 AATAAATAATATAA
          1 AATAAATAAT-TAA

                         
       4094 AA-AAATAATTAA
          1 AATAAATAATTAA

                   
       4106 AATAAAT
          1 AATAAAT

       4113 GCGACGGCGG


Statistics
Matches: 18,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  12    5  0.28
  13   11  0.61
  14    2  0.11

ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27


Consensus pattern (13 bp):   
AATAAATAATTAA

Found at i:9475 original size:1 final size:1

Alignment explanation


    Indices: 9469--9500  Score: 64
    Period size: 1  Copynumber: 32.0  Consensus size: 1

       9459 GCCAAATTAG

                                            
       9469 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

       9501 GGAAAAGAAA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   31  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Found at i:16004 original size:13 final size:13

Alignment explanation


    Indices: 15978--16006  Score: 51
    Period size: 12  Copynumber: 2.3  Consensus size: 13

      15968 CTACTCAATC

                         
      15978 AATATATAAGAAA
          1 AATATATAAGAAA

                         
      15991 AATA-ATAAGAAA
          1 AATATATAAGAAA

                
      16003 AATA
          1 AATA

      16007 GAAAATATAT


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  12   12  0.75
  13    4  0.25

ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21


Consensus pattern (13 bp):   
AATATATAAGAAA
Done.