Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000691.1 Corchorus capsularis cultivar CVL-1 contig00691, 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: 31227
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33


Found at i:4450 original size:41 final size:41

Alignment explanation


    Indices: 4399--4488  Score: 146
    Period size: 41  Copynumber: 2.2  Consensus size: 41

       4389 GTTTGATCAA

                 *                                    
       4399 TGATCAATGAAACAATTTTAAGTATGTTTTAAC-GCATTATT
          1 TGATCGATGAAACAATTTTAAGTATGTTTTAACAG-ATTATT

                                                  *  
       4440 TGATCGATGAAACAATTTTAAGTATGTTTTAACAGATTGTT
          1 TGATCGATGAAACAATTTTAAGTATGTTTTAACAGATTATT

                    
       4481 TGATCGAT
          1 TGATCGAT

       4489 TTGACTCTAA


Statistics
Matches: 46,  Mismatches: 2, Indels: 2
        0.92            0.04        0.04

Matches are distributed among these distances:
  41   45  0.98
  42    1  0.02

ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41


Consensus pattern (41 bp):   
TGATCGATGAAACAATTTTAAGTATGTTTTAACAGATTATT

Found at i:4704 original size:17 final size:17

Alignment explanation


    Indices: 4679--4714  Score: 54
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       4669 ACGTGTCGCC

                *            
       4679 TTCTCAAACATTCTAAT
          1 TTCTAAAACATTCTAAT

                     *       
       4696 TTCTAAAACTTTCTAAT
          1 TTCTAAAACATTCTAAT

              
       4713 TT
          1 TT

       4715 AAAAGTTCGG


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  17   17  1.00

ACGTcount: A:0.33, C:0.19, G:0.00, T:0.47


Consensus pattern (17 bp):   
TTCTAAAACATTCTAAT
Done.