Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007116.1 Corchorus olitorius cultivar O-4 contig07141, 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, 652

Length: 1087
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35


Found at i:140 original size:11 final size:11

Alignment explanation


    Indices: 116--145  Score: 53
    Period size: 11  Copynumber: 2.8  Consensus size: 11

        106 TAAGTATACA

                       
        116 GGCCGGGC-CG
          1 GGCCGGGCTCG

                       
        126 GGCCGGGCTCG
          1 GGCCGGGCTCG

                     
        137 GGCCGGGCT
          1 GGCCGGGCT

        146 TTTATGGTTA


Statistics
Matches: 19,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  10    8  0.42
  11   11  0.58

ACGTcount: A:0.00, C:0.37, G:0.57, T:0.07


Consensus pattern (11 bp):   
GGCCGGGCTCG

Found at i:949 original size:45 final size:42

Alignment explanation


    Indices: 888--976  Score: 133
    Period size: 45  Copynumber: 2.0  Consensus size: 42

        878 ATTAATTCCT

                                                      
        888 ATGTAATATATATATAATAACTAAAATACGTACATTAATTAA
          1 ATGTAATATATATATAATAACTAAAATACGTACATTAATTAA

                                     *      *            
        930 ATGTAATAATAATACTATAATAACTGAAATACTTACATTAATTAA
          1 ATGTAAT-AT-ATA-TATAATAACTAAAATACGTACATTAATTAA

              
        975 AT
          1 AT

        977 TCTTAGATAT


Statistics
Matches: 42,  Mismatches: 2, Indels: 3
        0.89            0.04        0.06

Matches are distributed among these distances:
  42    7  0.17
  43    2  0.05
  44    3  0.07
  45   30  0.71

ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36


Consensus pattern (42 bp):   
ATGTAATATATATATAATAACTAAAATACGTACATTAATTAA
Done.