Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018637.1 Corchorus olitorius cultivar O-4 contig18670, 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: 5000
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:2903 original size:33 final size:33

Alignment explanation


    Indices: 2833--2970  Score: 129
    Period size: 33  Copynumber: 4.2  Consensus size: 33

       2823 ATGATCAACC

                                     ** *      
       2833 AAAACAGATTT-GTTTTCATCACAATTAGCATCC-
          1 AAAACAGATTTAG-TTTCATCACAAACAACA-CCT

                                              
       2866 AAAACAGAATTT-GTTTCATCACAAACAACACCT
          1 AAAACAG-ATTTAGTTTCATCACAAACAACACCT

                          *                * 
       2899 AAAACAGATTTAGTGTCATCACAAACAACACTT
          1 AAAACAGATTTAGTTTCATCACAAACAACACCT

               **  *      *       *       *  
       2932 AAATTAGGTTTAGTATCATCACTAACAACATCT
          1 AAAACAGATTTAGTTTCATCACAAACAACACCT

                  
       2965 AAAACA
          1 AAAACA

       2971 CTCTTTGCAA


Statistics
Matches: 88,  Mismatches: 14, Indels: 6
        0.81            0.13        0.06

Matches are distributed among these distances:
  32    6  0.07
  33   77  0.88
  34    5  0.06

ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28


Consensus pattern (33 bp):   
AAAACAGATTTAGTTTCATCACAAACAACACCT

Found at i:4559 original size:25 final size:23

Alignment explanation


    Indices: 4528--4577  Score: 73
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       4518 CTTGAAAATT

                                      
       4528 TGAAAAACTTTGATGGATGAGATGAA
          1 TGAAAAAC-TTGAT-GAT-AGATGAA

                                   
       4554 TGAAAAACTTGATGATAGATGAA
          1 TGAAAAACTTGATGATAGATGAA

             
       4577 T
          1 T

       4578 AGAAGGATAG


Statistics
Matches: 24,  Mismatches: 0, Indels: 3
        0.89            0.00        0.11

Matches are distributed among these distances:
  23    8  0.33
  24    3  0.12
  25    5  0.21
  26    8  0.33

ACGTcount: A:0.44, C:0.04, G:0.24, T:0.28


Consensus pattern (23 bp):   
TGAAAAACTTGATGATAGATGAA
Done.