Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013565.1 Corchorus olitorius cultivar O-4 contig13598, 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: 5943
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30


Found at i:4595 original size:33 final size:33

Alignment explanation


    Indices: 4558--4655  Score: 94
    Period size: 33  Copynumber: 3.0  Consensus size: 33

       4548 CTATGATCAA

                           *        *   *     
       4558 CCAAAACA-AATTTATTTTCATCATAATTAACAT
          1 CCAAAACAGAATTT-GTTTCATCACAATCAACAT

                                             
       4591 CCAAAACAGAATTTGTTTCATCACAATCAACA-
          1 CCAAAACAGAATTTGTTTCATCACAATCAACAT

                   *          *         *     
       4623 CCTAAAATAG-ATTTAGTGTCATCACAAACAACA
          1 CC-AAAACAGAATTT-GTTTCATCACAATCAACA

       4656 CTCAAATTAG


Statistics
Matches: 56,  Mismatches: 6, Indels: 6
        0.82            0.09        0.09

Matches are distributed among these distances:
  32    6  0.11
  33   45  0.80
  34    5  0.09

ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29


Consensus pattern (33 bp):   
CCAAAACAGAATTTGTTTCATCACAATCAACAT

Found at i:4656 original size:33 final size:32

Alignment explanation


    Indices: 4608--4704  Score: 104
    Period size: 33  Copynumber: 2.9  Consensus size: 32

       4598 AGAATTTGTT

                     *                      *
       4608 TCATCACAATCAACACCTAAAATAGATTTAGTG
          1 TCATCACAAACAACA-CTAAAATAGATTTAGTA

                                 *   *       
       4641 TCATCACAAACAACACTCAAATTAGGTTTAGTA
          1 TCATCACAAACAACACT-AAAATAGATTTAGTA

             *   *                *        
       4674 TTATCGCAAACAACATCTAAAACAGATTTAG
          1 TCATCACAAACAACA-CTAAAATAGATTTAG

       4705 AATTACTCTT


Statistics
Matches: 53,  Mismatches: 9, Indels: 4
        0.80            0.14        0.06

Matches are distributed among these distances:
  32    2  0.04
  33   49  0.92
  34    2  0.04

ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27


Consensus pattern (32 bp):   
TCATCACAAACAACACTAAAATAGATTTAGTA
Done.