Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010963.1 Corchorus capsularis cultivar CVL-1 contig10984, 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: 17500
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:13286 original size:101 final size:100

Alignment explanation


    Indices: 13173--13434  Score: 392
    Period size: 94  Copynumber: 2.7  Consensus size: 100

      13163 TGGATGAGAT

                                                                             
      13173 AATGGTCTGCAAAAGTTATCCTTATCATGAAGAATCTCTGCAAAAATTGTCTCCAATTATGTCAA
          1 AATGGTCTGC-AAAGTTATCCTTATCATGAAGAATCTCTGCAAAAATTGTCTCCAATTATGTCAA

                                 *              
      13238 TAATGGAAGGCTGACTCATTGGATGAAGATAAAGCA
         65 TAATGGAAGGCTGACTCATTGAATGAAGATAAAGCA

                                                                   *         
      13274 AATGGTCTGCAAAG------TTATCATGAAGAATCTCTGCAAAAATTGTCTCCAACTATGTCAAT
          1 AATGGTCTGCAAAGTTATCCTTATCATGAAGAATCTCTGCAAAAATTGTCTCCAATTATGTCAAT

                *                  *           
      13333 AATGTAAGGCTGACTCATTGAATTAAGATAAAGCA
         66 AATGGAAGGCTGACTCATTGAATGAAGATAAAGCA

                                **  *                      *                 
      13368 AATGGTCTGCAAAGTTATCCCAATTATGAAGGAATCTCTGCAAAAATGGTCTCCAATTATGTCAA
          1 AATGGTCTGCAAAGTTATCCTTATCATGAA-GAATCTCTGCAAAAATTGTCTCCAATTATGTCAA

              
      13433 TA
         65 TA

      13435 GTACAAAGTA


Statistics
Matches: 145,  Mismatches: 9, Indels: 14
        0.86            0.05        0.08

Matches are distributed among these distances:
  94   90  0.62
 100   11  0.08
 101   44  0.30

ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29


Consensus pattern (100 bp):   
AATGGTCTGCAAAGTTATCCTTATCATGAAGAATCTCTGCAAAAATTGTCTCCAATTATGTCAAT
AATGGAAGGCTGACTCATTGAATGAAGATAAAGCA

Found at i:17471 original size:2 final size:2

Alignment explanation


    Indices: 17464--17500  Score: 67
    Period size: 2  Copynumber: 19.0  Consensus size: 2

      17454 AAAATCTAAC

                                                                    
      17464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT


Statistics
Matches: 34,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   1    1  0.03
   2   33  0.97

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.