Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017293.1 Corchorus olitorius cultivar O-4 contig17326, 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: 2833
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32


Found at i:1360 original size:21 final size:21

Alignment explanation


    Indices: 1327--1375  Score: 55
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       1317 AAGAATTGTA

                          **     
       1327 GCTT-CTTGGAAATGGCTCTT
          1 GCTTCCTTGGAAATCCCTCTT

                    *            
       1347 GCTTCCTTTGAAATCCCTCTT
          1 GCTTCCTTGGAAATCCCTCTT

                    
       1368 GCATTCCT
          1 GC-TTCCT

       1376 AAAGCATTGA


Statistics
Matches: 24,  Mismatches: 3, Indels: 2
        0.83            0.10        0.07

Matches are distributed among these distances:
  20    4  0.17
  21   15  0.62
  22    5  0.21

ACGTcount: A:0.14, C:0.29, G:0.16, T:0.41


Consensus pattern (21 bp):   
GCTTCCTTGGAAATCCCTCTT

Found at i:2534 original size:27 final size:27

Alignment explanation


    Indices: 2491--2550  Score: 79
    Period size: 27  Copynumber: 2.2  Consensus size: 27

       2481 ATTCAACAAT

                                         
       2491 TAAAAGTAACTAAAAAAATAAAC-AAAAA
          1 TAAAAGTAAC-AAAAAAAT-AACGAAAAA

                                        
       2519 TAAAAGTAA-AAGAAAAATAACGAAAAA
          1 TAAAAGTAACAA-AAAAATAACGAAAAA

                 
       2546 TAAAA
          1 TAAAA

       2551 AGATGAGGGT


Statistics
Matches: 30,  Mismatches: 0, Indels: 5
        0.86            0.00        0.14

Matches are distributed among these distances:
  26    5  0.17
  27   16  0.53
  28    9  0.30

ACGTcount: A:0.75, C:0.05, G:0.07, T:0.13


Consensus pattern (27 bp):   
TAAAAGTAACAAAAAAATAACGAAAAA
Done.