Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022425.1 Corchorus olitorius cultivar O-4 contig22458, 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: 16730
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:936 original size:6 final size:6

Alignment explanation


    Indices: 925--952  Score: 56
    Period size: 6  Copynumber: 4.7  Consensus size: 6

        915 AAATGCATGC

                                            
        925 GTGATT GTGATT GTGATT GTGATT GTGA
          1 GTGATT GTGATT GTGATT GTGATT GTGA

        953 GAGAGATTTG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   22  1.00

ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46


Consensus pattern (6 bp):   
GTGATT

Found at i:13175 original size:15 final size:15

Alignment explanation


    Indices: 13155--13199  Score: 54
    Period size: 18  Copynumber: 2.7  Consensus size: 15

      13145 TTCCACCATG

                           
      13155 AACCGCCGCCTCATC
          1 AACCGCCGCCTCATC

                              
      13170 AACCGCCTCCGCCTCATC
          1 AACCG---CCGCCTCATC

                        
      13188 AACCGCCTGCCT
          1 AACCGCC-GCCT

      13200 TCGTAACTCA


Statistics
Matches: 26,  Mismatches: 0, Indels: 7
        0.79            0.00        0.21

Matches are distributed among these distances:
  15    7  0.27
  16    4  0.15
  18   15  0.58

ACGTcount: A:0.18, C:0.53, G:0.13, T:0.16


Consensus pattern (15 bp):   
AACCGCCGCCTCATC

Found at i:13183 original size:18 final size:18

Alignment explanation


    Indices: 13160--13195  Score: 72
    Period size: 18  Copynumber: 2.0  Consensus size: 18

      13150 CCATGAACCG

                              
      13160 CCGCCTCATCAACCGCCT
          1 CCGCCTCATCAACCGCCT

                              
      13178 CCGCCTCATCAACCGCCT
          1 CCGCCTCATCAACCGCCT

      13196 GCCTTCGTAA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.17, C:0.56, G:0.11, T:0.17


Consensus pattern (18 bp):   
CCGCCTCATCAACCGCCT

Found at i:15909 original size:17 final size:18

Alignment explanation


    Indices: 15887--15922  Score: 65
    Period size: 17  Copynumber: 2.1  Consensus size: 18

      15877 TCATATATAC

                              
      15887 AATCTATAATT-ATGATT
          1 AATCTATAATTAATGATT

                              
      15904 AATCTATAATTAATGATT
          1 AATCTATAATTAATGATT

             
      15922 A
          1 A

      15923 TATGTACCTC


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

Matches are distributed among these distances:
  17   11  0.61
  18    7  0.39

ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44


Consensus pattern (18 bp):   
AATCTATAATTAATGATT
Done.