Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019783.1 Corchorus olitorius cultivar O-4 contig19816, 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: 11714
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31


Found at i:1097 original size:31 final size:31

Alignment explanation


    Indices: 1059--1135  Score: 136
    Period size: 31  Copynumber: 2.5  Consensus size: 31

       1049 ACAAAACAAT

                                  *        
       1059 CAATTAAGGATATAACGTTTTCTATTTCAAG
          1 CAATTAAGGATATAACGTTTTCGATTTCAAG

                         *                 
       1090 CAATTAAGGATATGACGTTTTCGATTTCAAG
          1 CAATTAAGGATATAACGTTTTCGATTTCAAG

                           
       1121 CAATTAAGGATATAA
          1 CAATTAAGGATATAA

       1136 TCAGTTAGGG


Statistics
Matches: 43,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  31   43  1.00

ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35


Consensus pattern (31 bp):   
CAATTAAGGATATAACGTTTTCGATTTCAAG

Found at i:4054 original size:14 final size:15

Alignment explanation


    Indices: 4035--4063  Score: 51
    Period size: 14  Copynumber: 2.0  Consensus size: 15

       4025 TAATTATGTA

                           
       4035 GTATTGGGCC-AGTC
          1 GTATTGGGCCGAGTC

                           
       4049 GTATTGGGCCGAGTC
          1 GTATTGGGCCGAGTC

       4064 TACTCCCTTT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14   10  0.71
  15    4  0.29

ACGTcount: A:0.14, C:0.21, G:0.38, T:0.28


Consensus pattern (15 bp):   
GTATTGGGCCGAGTC

Found at i:7875 original size:27 final size:27

Alignment explanation


    Indices: 7839--7897  Score: 82
    Period size: 27  Copynumber: 2.2  Consensus size: 27

       7829 GCTTAAGAGT

                *            *    **   
       7839 ATCATCAACATGATCATGAGAAGTAAC
          1 ATCAGCAACATGATCATCAGAAACAAC

                                       
       7866 ATCAGCAACATGATCATCAGAAACAAC
          1 ATCAGCAACATGATCATCAGAAACAAC

                 
       7893 ATCAG
          1 ATCAG

       7898 GCTGGTGGAC


Statistics
Matches: 28,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  27   28  1.00

ACGTcount: A:0.46, C:0.22, G:0.14, T:0.19


Consensus pattern (27 bp):   
ATCAGCAACATGATCATCAGAAACAAC
Done.