Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023443.1 Corchorus olitorius cultivar O-4 contig23476, 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: 36162
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32


Found at i:21813 original size:21 final size:21

Alignment explanation


    Indices: 21796--21848  Score: 97
    Period size: 21  Copynumber: 2.5  Consensus size: 21

      21786 CATTGGACCT

                       *         
      21796 AATGGCATCTTTAATGGATCA
          1 AATGGCATCTTCAATGGATCA

                                 
      21817 AATGGCATCTTCAATGGATCA
          1 AATGGCATCTTCAATGGATCA

                       
      21838 AATGGCATCTT
          1 AATGGCATCTT

      21849 AGGCAACTCC


Statistics
Matches: 31,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  21   31  1.00

ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32


Consensus pattern (21 bp):   
AATGGCATCTTCAATGGATCA

Found at i:22049 original size:21 final size:21

Alignment explanation


    Indices: 22020--22061  Score: 66
    Period size: 21  Copynumber: 2.0  Consensus size: 21

      22010 TCCTTTGCTT

                *        *       
      22020 ATGATCTCTAATGTCCTTCAA
          1 ATGAACTCTAATGGCCTTCAA

                                 
      22041 ATGAACTCTAATGGCCTTCAA
          1 ATGAACTCTAATGGCCTTCAA

      22062 GTCTTCAAGA


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   19  1.00

ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33


Consensus pattern (21 bp):   
ATGAACTCTAATGGCCTTCAA

Found at i:32248 original size:136 final size:136

Alignment explanation


    Indices: 32004--32279  Score: 516
    Period size: 136  Copynumber: 2.0  Consensus size: 136

      31994 TTGGAACATG

                                                                             
      32004 TTGTGCACATCCTCCTTGATCTTCATGCTTCTCCATGCTTCCTTGCACTCCATGATCTTCCTCTC
          1 TTGTGCACATCCTCCTTGATCTTCATGCTTCTCCATGCTTCCTTGCACTCCATGATCTTCCTCTC

                                                         *                   
      32069 CACGATCTCCATTATCATCTTGATGTCCTTGATAAGCTTTTGGCGCATCAGTCTCACCATCATGC
         66 CACGATCTCCATTATCATCTTGATGTCCTTGATAAGCTTTTGGCGAATCAGTCTCACCATCATGC

                  
      32134 TTCACC
        131 TTCACC

                  *                    *                                     
      32140 TTGTGCGCATCCTCCTTGATCTTCATGTTTCTCCATGCTTCCTTGCACTCCATGATCTTCCTCTC
          1 TTGTGCACATCCTCCTTGATCTTCATGCTTCTCCATGCTTCCTTGCACTCCATGATCTTCCTCTC

                         *                                                   
      32205 CACGATCTCCATTGTCATCTTGATGTCCTTGATAAGCTTTTGGCGAATCAGTCTCACCATCATGC
         66 CACGATCTCCATTATCATCTTGATGTCCTTGATAAGCTTTTGGCGAATCAGTCTCACCATCATGC

                  
      32270 TTCACC
        131 TTCACC

                
      32276 TTGT
          1 TTGT

      32280 TGTCATATTG


Statistics
Matches: 136,  Mismatches: 4, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
 136  136  1.00

ACGTcount: A:0.16, C:0.33, G:0.13, T:0.38


Consensus pattern (136 bp):   
TTGTGCACATCCTCCTTGATCTTCATGCTTCTCCATGCTTCCTTGCACTCCATGATCTTCCTCTC
CACGATCTCCATTATCATCTTGATGTCCTTGATAAGCTTTTGGCGAATCAGTCTCACCATCATGC
TTCACC
Done.