Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003029.1 Corchorus capsularis cultivar CVL-1 contig03037, 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, 625

Length: 1042
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33


Found at i:94 original size:33 final size:33

Alignment explanation


    Indices: 69--177  Score: 148
    Period size: 33  Copynumber: 3.3  Consensus size: 33

         59 TAGTTTTATT

                                             
         69 GCAAACAACACTCAAATTAGGTTTAGTATCATC
          1 GCAAACAACACTCAAATTAGGTTTAGTATCATC

                             **  *    * *    *
        102 GCAAACAACA-TCTAAAACAGATTTAATGTCATT
          1 GCAAACAACACTC-AAATTAGGTTTAGTATCATC

                                             
        135 GCAAACAACACTCAAATTAGGTTTAGTATCATC
          1 GCAAACAACACTCAAATTAGGTTTAGTATCATC

                      
        168 GCAAACAACA
          1 GCAAACAACA

        178 TCTAAAAGAC


Statistics
Matches: 62,  Mismatches: 12, Indels: 4
        0.79            0.15        0.05

Matches are distributed among these distances:
  32    2  0.03
  33   58  0.94
  34    2  0.03

ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25


Consensus pattern (33 bp):   
GCAAACAACACTCAAATTAGGTTTAGTATCATC

Found at i:136 original size:66 final size:66

Alignment explanation


    Indices: 44--184  Score: 246
    Period size: 66  Copynumber: 2.1  Consensus size: 66

         34 TCACAATTAG

                *            * * *                                           
         44 CATCCAAAACAGATTTAGTTTTATTGCAAACAACACTCAAATTAGGTTTAGTATCATCGCAAACA
          1 CATCTAAAACAGATTTAATGTCATTGCAAACAACACTCAAATTAGGTTTAGTATCATCGCAAACA

             
        109 A
         66 A

                                                                             
        110 CATCTAAAACAGATTTAATGTCATTGCAAACAACACTCAAATTAGGTTTAGTATCATCGCAAACA
          1 CATCTAAAACAGATTTAATGTCATTGCAAACAACACTCAAATTAGGTTTAGTATCATCGCAAACA

             
        175 A
         66 A

                     
        176 CATCTAAAA
          1 CATCTAAAA

        185 GACTCTTTTC


Statistics
Matches: 71,  Mismatches: 4, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  66   71  1.00

ACGTcount: A:0.43, C:0.20, G:0.10, T:0.28


Consensus pattern (66 bp):   
CATCTAAAACAGATTTAATGTCATTGCAAACAACACTCAAATTAGGTTTAGTATCATCGCAAACA
A
Done.