Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024656.1 Corchorus olitorius cultivar O-4 contig24689, 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: 2176
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29


Found at i:2113 original size:33 final size:31

Alignment explanation


    Indices: 2040--2144  Score: 102
    Period size: 33  Copynumber: 3.2  Consensus size: 31

       2030 GCTATGATCA

                     *                 ** * 
       2040 ACCAAAACATATTTGTTTTCATCACAATTAGC
          1 ACCAAAACAGATTTGTTTT-ATCACAAACAAC

                                             
       2072 ATCCAAAACAGAATTTGTTTTATCACAAACAAC
          1 A-CCAAAACAG-ATTTGTTTTATCACAAACAAC

                              * *            
       2105 ACCTAAAACAGATTTAGTGTCATCACAAACAAC
          1 ACC-AAAACAGATTT-GTTTTATCACAAACAAC

                   
       2138 ACTCAAA
          1 AC-CAAA

       2145 TTAGTTTTAG


Statistics
Matches: 62,  Mismatches: 6, Indels: 9
        0.81            0.08        0.12

Matches are distributed among these distances:
  32    7  0.11
  33   45  0.73
  34   10  0.16

ACGTcount: A:0.44, C:0.23, G:0.07, T:0.27


Consensus pattern (31 bp):   
ACCAAAACAGATTTGTTTTATCACAAACAAC

Found at i:2154 original size:33 final size:33

Alignment explanation


    Indices: 2076--2176  Score: 98
    Period size: 33  Copynumber: 3.1  Consensus size: 33

       2066 ATTAGCATCC

                           * *                
       2076 AAAACAGAATTT-GTTTTATCACAAACAACACCT
          1 AAAACAG-ATTTAGTATCATCACAAACAACACCT

                          *                  
       2109 AAAACAGATTTAGTGTCATCACAAACAACA-CT
          1 AAAACAGATTTAGTATCATCACAAACAACACCT

                **  *            *         *  
       2141 CAAATTAGTTTTAGTATCATCGCAAACAACATCT
          1 -AAAACAGATTTAGTATCATCACAAACAACACCT

              
       2175 AA
          1 AA


Statistics
Matches: 58,  Mismatches: 7, Indels: 6
        0.82            0.10        0.08

Matches are distributed among these distances:
  32    6  0.10
  33   50  0.86
  34    2  0.03

ACGTcount: A:0.45, C:0.21, G:0.08, T:0.27


Consensus pattern (33 bp):   
AAAACAGATTTAGTATCATCACAAACAACACCT
Done.