Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01010220.1 Corchorus capsularis cultivar CVL-1 contig10241, 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: 11360
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33


Found at i:3910 original size:135 final size:135

Alignment explanation


    Indices: 3668--3925  Score: 498
    Period size: 135  Copynumber: 1.9  Consensus size: 135

       3658 AACACCCTTA

                                                                             
       3668 CAAAGTTCAACTTCTAAAAAATTGCATATTGTTTTTGATAATATGTCAGAACTACAAGGTCTCTA
          1 CAAAGTTCAACTTCTAAAAAATTGCATATTGTTTTTGATAATATGTCAGAACTACAAGGTCTCTA

                                                                             
       3733 TGATGTATAGGTGCATAAGAGAACTAGATGACTTATCTGGCAAAGAAAACCTTGGTTTTTGATGC
         66 TGATGTATAGGTGCATAAGAGAACTAGATGACTTATCTGGCAAAGAAAACCTTGGTTTTTGATGC

                 
       3798 TATGT
        131 TATGT

                                                   *                         
       3803 CAAAGTTCAACTTCTAAAAAATTGCATATTGTTTTTGATGATATGTCAGAACTACAAGGTCTCTA
          1 CAAAGTTCAACTTCTAAAAAATTGCATATTGTTTTTGATAATATGTCAGAACTACAAGGTCTCTA

                                           *                          
       3868 TGATGTATAGGTGCATAAGAGAACTAGATGATTTATCTGGCAAAGAAAACCTTGGTTT
         66 TGATGTATAGGTGCATAAGAGAACTAGATGACTTATCTGGCAAAGAAAACCTTGGTTT

       3926 CTGTCAGCAT


Statistics
Matches: 121,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 135  121  1.00

ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34


Consensus pattern (135 bp):   
CAAAGTTCAACTTCTAAAAAATTGCATATTGTTTTTGATAATATGTCAGAACTACAAGGTCTCTA
TGATGTATAGGTGCATAAGAGAACTAGATGACTTATCTGGCAAAGAAAACCTTGGTTTTTGATGC
TATGT

Found at i:10798 original size:72 final size:72

Alignment explanation


    Indices: 10722--10866  Score: 263
    Period size: 72  Copynumber: 2.0  Consensus size: 72

      10712 CGTGCGTTGC

                           *                       *                         
      10722 ACGTGATACTTTAAATTATATGAAAATTAAAATCTTAAGTATACTACTAATTTTGTCCTAAAAAA
          1 ACGTGATACTTTAAACTATATGAAAATTAAAATCTTAAGCATACTACTAATTTTGTCCTAAAAAA

                   
      10787 TTATATT
         66 TTATATT

                                    *                                        
      10794 ACGTGATACTTTAAACTATATGAAGATTAAAATCTTAAGCATACTACTAATTTTGTCCTAAAAAA
          1 ACGTGATACTTTAAACTATATGAAAATTAAAATCTTAAGCATACTACTAATTTTGTCCTAAAAAA

                   
      10859 TTATATT
         66 TTATATT

             
      10866 A
          1 A

      10867 TTAGAGATGA


Statistics
Matches: 70,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  72   70  1.00

ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39


Consensus pattern (72 bp):   
ACGTGATACTTTAAACTATATGAAAATTAAAATCTTAAGCATACTACTAATTTTGTCCTAAAAAA
TTATATT
Done.