Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005811.1 Corchorus capsularis cultivar CVL-1 contig05829, 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, 762

Length: 1270
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32


Found at i:1142 original size:27 final size:27

Alignment explanation


    Indices: 1104--1270  Score: 262
    Period size: 27  Copynumber: 6.0  Consensus size: 27

       1094 TCTGCAAGAA

                                       
       1104 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                                       
       1131 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                                       
       1158 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                            *    *           
       1185 CTCCGAATCATAAATGATCCGCTGAAGCTCATC
          1 CTCCGAATCAT---T-CT-C-TTGAAGCTCATC

                                       
       1218 CTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATC

                                      
       1245 CTCCGAATCATTCTCTTGAAGCTCAT
          1 CTCCGAATCATTCTCTTGAAGCTCAT


Statistics
Matches: 130,  Mismatches: 4, Indels: 12
        0.89            0.03        0.08

Matches are distributed among these distances:
  27  102  0.78
  28    1  0.01
  29    1  0.01
  30    2  0.02
  31    1  0.01
  32    1  0.01
  33   22  0.17

ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32


Consensus pattern (27 bp):   
CTCCGAATCATTCTCTTGAAGCTCATC

Found at i:1240 original size:60 final size:54

Alignment explanation


    Indices: 1104--1270  Score: 244
    Period size: 60  Copynumber: 3.0  Consensus size: 54

       1094 TCTGCAAGAA

                                                   *  *           
       1104 CTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTATCCTGAAGCTCATC

                                                                        
       1158 CTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATAAATGATCCGCTGAAGCTCATC
          1 CTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCAT---T-AT-C-CTGAAGCTCATC

                                                   *  *          
       1218 CTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTCTCTTGAAGCTCAT
          1 CTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTATCCTGAAGCTCAT


Statistics
Matches: 103,  Mismatches: 4, Indels: 12
        0.87            0.03        0.10

Matches are distributed among these distances:
  54   48  0.47
  55    1  0.01
  56    1  0.01
  57    2  0.02
  58    1  0.01
  59    1  0.01
  60   49  0.48

ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32


Consensus pattern (54 bp):   
CTCCGAATCATTCTCTTGAAGCTCATCCTCCGAATCATTATCCTGAAGCTCATC
Done.