Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011986.1 Corchorus olitorius cultivar O-4 contig12019, 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: 16032
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32


Found at i:1461 original size:11 final size:11

Alignment explanation


    Indices: 1445--1470  Score: 52
    Period size: 11  Copynumber: 2.4  Consensus size: 11

       1435 AGATAACTTC

                       
       1445 TTTTCTTCTAG
          1 TTTTCTTCTAG

                       
       1456 TTTTCTTCTAG
          1 TTTTCTTCTAG

                
       1467 TTTT
          1 TTTT

       1471 TAGGCAAAGG


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   15  1.00

ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69


Consensus pattern (11 bp):   
TTTTCTTCTAG

Found at i:2261 original size:15 final size:15

Alignment explanation


    Indices: 2231--2272  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

       2221 TTACTCTGTT

                            
       2231 TTGTTTTCTAGTTTAA
          1 TTGTTTTCT-GTTTAA

                           
       2247 TTGTTTTCTGTTTAA
          1 TTGTTTTCTGTTTAA

               *       
       2262 TTGCTTTCTGT
          1 TTGTTTTCTGT

       2273 CAATCTCTGT


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.12, C:0.10, G:0.14, T:0.64


Consensus pattern (15 bp):   
TTGTTTTCTGTTTAA

Found at i:10290 original size:37 final size:37

Alignment explanation


    Indices: 10236--10311  Score: 143
    Period size: 37  Copynumber: 2.1  Consensus size: 37

      10226 CCAATTACCT

                                                 
      10236 GCATGGAATGATAAAATTTTACCAGATTGGAGAATGA
          1 GCATGGAATGATAAAATTTTACCAGATTGGAGAATGA

                        *                        
      10273 GCATGGAATGATGAAATTTTACCAGATTGGAGAATGA
          1 GCATGGAATGATAAAATTTTACCAGATTGGAGAATGA

              
      10310 GC
          1 GC

      10312 CTGAAGACTG


Statistics
Matches: 38,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  37   38  1.00

ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26


Consensus pattern (37 bp):   
GCATGGAATGATAAAATTTTACCAGATTGGAGAATGA
Done.