Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009837.1 Corchorus olitorius cultivar O-4 contig09869, 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: 2823
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:1056 original size:81 final size:81

Alignment explanation


    Indices: 906--1068  Score: 281
    Period size: 81  Copynumber: 2.0  Consensus size: 81

        896 TATTGAAGCT

                                                                        *    
        906 AGAAAAAGGCATAATCTTGTGAGATCATTAAGAGAGTAGTGGATCGCCAATCCATACGTTGAGTA
          1 AGAAAAAGGCATAATCTTGTGAGATCATTAAGAGAGTAGTGGATCGCCAATCCATACGTTCAGTA

                            
        971 CAAACACGAGAGCACA
         66 CAAACACGAGAGCACA

                              *                                *    *       *
        987 AGAAAAAGGCATAATCTTTTGAGATCATTAAGAGAGTAGTGGATCGCCAATTCATAGGTTCAGTG
          1 AGAAAAAGGCATAATCTTGTGAGATCATTAAGAGAGTAGTGGATCGCCAATCCATACGTTCAGTA

                            
       1052 CAAACACGAGAGCACA
         66 CAAACACGAGAGCACA

             
       1068 A
          1 A

       1069 CAAATGTAAA


Statistics
Matches: 77,  Mismatches: 5, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  81   77  1.00

ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21


Consensus pattern (81 bp):   
AGAAAAAGGCATAATCTTGTGAGATCATTAAGAGAGTAGTGGATCGCCAATCCATACGTTCAGTA
CAAACACGAGAGCACA

Found at i:2367 original size:22 final size:22

Alignment explanation


    Indices: 2336--2379  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       2326 TTCTTTCCGC

                 *     *          
       2336 AACAATTTCTGTCCCGAAGTTG
          1 AACAAATTCTGGCCCGAAGTTG

                        *         
       2358 AACAAATTCTGGGCCGAAGTTG
          1 AACAAATTCTGGCCCGAAGTTG

       2380 TCCTGCAATC


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  22   19  1.00

ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27


Consensus pattern (22 bp):   
AACAAATTCTGGCCCGAAGTTG

Found at i:2526 original size:21 final size:21

Alignment explanation


    Indices: 2502--2547  Score: 56
    Period size: 21  Copynumber: 2.2  Consensus size: 21

       2492 TTTTCTTTGC

                    *            
       2502 TCAAATCATCTTCAAAGGTCT
          1 TCAAATCAACTTCAAAGGTCT

                * *        *     
       2523 TCAATTGAACTTCAATGGTCT
          1 TCAAATCAACTTCAAAGGTCT

                
       2544 TCAA
          1 TCAA

       2548 GTCTTCAAGA


Statistics
Matches: 21,  Mismatches: 4, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   21  1.00

ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35


Consensus pattern (21 bp):   
TCAAATCAACTTCAAAGGTCT
Done.