Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024603.1 Corchorus olitorius cultivar O-4 contig24636, 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: 12351
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32


Found at i:2584 original size:21 final size:21

Alignment explanation


    Indices: 2558--2601  Score: 88
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       2548 TTTTGTCTCT

                                 
       2558 ATTTCGTTCACCGTAAGTTGC
          1 ATTTCGTTCACCGTAAGTTGC

                                 
       2579 ATTTCGTTCACCGTAAGTTGC
          1 ATTTCGTTCACCGTAAGTTGC

              
       2600 AT
          1 AT

       2602 GGTATTTTTG


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   23  1.00

ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39


Consensus pattern (21 bp):   
ATTTCGTTCACCGTAAGTTGC

Found at i:4361 original size:30 final size:31

Alignment explanation


    Indices: 4320--4378  Score: 84
    Period size: 31  Copynumber: 1.9  Consensus size: 31

       4310 CACGATACAC

                                **         
       4320 CACTCTCATTTT-TCCTACCTGCAGCCTCAT
          1 CACTCTCATTTTCTCCTACCCACAGCCTCAT

                *                        
       4350 CACTTTCATTTTCTCCTACCCACAGCCTC
          1 CACTCTCATTTTCTCCTACCCACAGCCTC

       4379 TCCACCTCAA


Statistics
Matches: 25,  Mismatches: 3, Indels: 1
        0.86            0.10        0.03

Matches are distributed among these distances:
  30   11  0.44
  31   14  0.56

ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36


Consensus pattern (31 bp):   
CACTCTCATTTTCTCCTACCCACAGCCTCAT

Found at i:5303 original size:41 final size:40

Alignment explanation


    Indices: 5244--5322  Score: 97
    Period size: 41  Copynumber: 1.9  Consensus size: 40

       5234 TATTTCCGTT

                      *  *                            
       5244 TTCAATGTTGTCCTTGATTT-AGTGTTTCATTTGTTAATTGA
          1 TTCAATGTTGCCCCTGATTTAAG-GTTTCATTT-TTAATTGA

                  *                    *          
       5285 TTCAATTTTGCCCCTGATTTAAGGTTTTATTTTTAATT
          1 TTCAATGTTGCCCCTGATTTAAGGTTTCATTTTTAATT

       5323 TATGCGGCTT


Statistics
Matches: 33,  Mismatches: 4, Indels: 3
        0.82            0.10        0.08

Matches are distributed among these distances:
  40    6  0.18
  41   25  0.76
  42    2  0.06

ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54


Consensus pattern (40 bp):   
TTCAATGTTGCCCCTGATTTAAGGTTTCATTTTTAATTGA
Done.