Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010864.1 Corchorus olitorius cultivar O-4 contig10896, 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: 14835
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29


Found at i:4228 original size:15 final size:14

Alignment explanation


    Indices: 4208--4254  Score: 58
    Period size: 14  Copynumber: 3.2  Consensus size: 14

       4198 CAGGATAGAT

                        * 
       4208 AAAAAAAAAAAAGC
          1 AAAAAAAAAAAAAC

                          
       4222 AAAAAAAAAAAAAC
          1 AAAAAAAAAAAAAC

                       *    
       4236 AAACAAACAAACAAAC
          1 AAA-AAA-AAAAAAAC

               
       4252 AAA
          1 AAA

       4255 CTAACTAACT


Statistics
Matches: 29,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  14   16  0.55
  15    3  0.10
  16   10  0.34

ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00


Consensus pattern (14 bp):   
AAAAAAAAAAAAAC

Found at i:8029 original size:30 final size:30

Alignment explanation


    Indices: 7995--8062  Score: 136
    Period size: 30  Copynumber: 2.3  Consensus size: 30

       7985 CCTAACCTAG

                                          
       7995 TCTAGCCTAATTTGTTGCAAGTTAAACCTT
          1 TCTAGCCTAATTTGTTGCAAGTTAAACCTT

                                          
       8025 TCTAGCCTAATTTGTTGCAAGTTAAACCTT
          1 TCTAGCCTAATTTGTTGCAAGTTAAACCTT

                    
       8055 TCTAGCCT
          1 TCTAGCCT

       8063 TCCGCTACGT


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  30   38  1.00

ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40


Consensus pattern (30 bp):   
TCTAGCCTAATTTGTTGCAAGTTAAACCTT
Done.