Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015228.1 Corchorus olitorius cultivar O-4 contig15261, 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: 23180
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:17591 original size:19 final size:18

Alignment explanation


    Indices: 17558--17593  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

      17548 TTGAAATTAT

                              
      17558 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
      17576 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

      17594 TAAATCTTCA


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:18942 original size:19 final size:18

Alignment explanation


    Indices: 18909--18944  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

      18899 TTGAAATTAT

                              
      18909 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
      18927 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

      18945 TAAATCTTCA


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:20506 original size:30 final size:29

Alignment explanation


    Indices: 20467--20523  Score: 89
    Period size: 30  Copynumber: 1.9  Consensus size: 29

      20457 GTTTATTAAT

                                           
      20467 GAAACTTGAAAATTAAAGACATAAGATAAAA
          1 GAAACTTGAAAATTAAAG-CAT-AGATAAAA

                                       
      20498 GAAA-TTGAAAATTAAAGCATAGATAA
          1 GAAACTTGAAAATTAAAGCATAGATAA

      20524 CTAATCCTAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
  28    6  0.23
  29    3  0.12
  30   13  0.50
  31    4  0.15

ACGTcount: A:0.60, C:0.05, G:0.14, T:0.21


Consensus pattern (29 bp):   
GAAACTTGAAAATTAAAGCATAGATAAAA
Done.