Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022663.1 Corchorus olitorius cultivar O-4 contig22696, 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: 11398
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34


Found at i:5342 original size:15 final size:16

Alignment explanation


    Indices: 5311--5351  Score: 66
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       5301 TTTACTTTGC

                            
       5311 ATTGTTTTCTAGTTTA
          1 ATTGTTTTCTAGTTTA

                      *     
       5327 ATTGTTTTC-CGTTTA
          1 ATTGTTTTCTAGTTTA

                      
       5342 ATTGTTTTCT
          1 ATTGTTTTCT

       5352 GTCAATCTCT


Statistics
Matches: 23,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  15   14  0.61
  16    9  0.39

ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63


Consensus pattern (16 bp):   
ATTGTTTTCTAGTTTA

Found at i:6520 original size:24 final size:25

Alignment explanation


    Indices: 6455--6514  Score: 86
    Period size: 26  Copynumber: 2.4  Consensus size: 25

       6445 TTAAAAAAAA

                 *                     
       6455 TTGCGATTTTGAAAAAAAAAATTGTTT
          1 TTGCGTTTTTG-AAAAAAAAATTG-TT

                                     
       6482 TTGCGTTTTTGAAAAAAAAATTG-T
          1 TTGCGTTTTTGAAAAAAAAATTGTT

                     
       6506 TTGCGTTTT
          1 TTGCGTTTT

       6515 CTAAAATAAA


Statistics
Matches: 32,  Mismatches: 1, Indels: 3
        0.89            0.03        0.08

Matches are distributed among these distances:
  24   10  0.31
  26   12  0.38
  27   10  0.31

ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45


Consensus pattern (25 bp):   
TTGCGTTTTTGAAAAAAAAATTGTT

Found at i:10544 original size:18 final size:17

Alignment explanation


    Indices: 10517--10552  Score: 63
    Period size: 18  Copynumber: 2.1  Consensus size: 17

      10507 TTTCTCTTCA

                             
      10517 TCTATTTTTCTTCTAGT
          1 TCTATTTTTCTTCTAGT

                              
      10534 TCTAGTTTTTCTTCTAGT
          1 TCTA-TTTTTCTTCTAGT

             
      10552 T
          1 T

      10553 TTAGGGCTAG


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  17    4  0.22
  18   14  0.78

ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64


Consensus pattern (17 bp):   
TCTATTTTTCTTCTAGT
Done.