Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012813.1 Corchorus capsularis cultivar CVL-1 contig12834, 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: 25249
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34


Found at i:7288 original size:23 final size:23

Alignment explanation


    Indices: 7250--7293  Score: 63
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       7240 TTCTCTATAA

                                    
       7250 TTATTTTCCTTTTCAAGTATTTTT
          1 TTATTTTCCTTTTCAAG-ATTTTT

                    *            
       7274 TTATTTT-GTTTTCAAGATTT
          1 TTATTTTCCTTTTCAAGATTT

       7294 GTTAATCCTA


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  22    4  0.21
  23    8  0.42
  24    7  0.37

ACGTcount: A:0.18, C:0.09, G:0.07, T:0.66


Consensus pattern (23 bp):   
TTATTTTCCTTTTCAAGATTTTT

Found at i:20436 original size:4 final size:4

Alignment explanation


    Indices: 20427--20451  Score: 50
    Period size: 4  Copynumber: 6.2  Consensus size: 4

      20417 GGTTCTTTTC

                                           
      20427 TTTG TTTG TTTG TTTG TTTG TTTG T
          1 TTTG TTTG TTTG TTTG TTTG TTTG T

      20452 CTTAAATTCT


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   21  1.00

ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76


Consensus pattern (4 bp):   
TTTG

Found at i:24043 original size:16 final size:15

Alignment explanation


    Indices: 24022--24064  Score: 52
    Period size: 16  Copynumber: 2.7  Consensus size: 15

      24012 TTTTTAGAGC

                            
      24022 ATATAATAATAACAAT
          1 ATATAATAATAA-AAT

                             
      24038 ATATAAT-ATGGAAAAT
          1 ATATAATAAT--AAAAT

                       
      24054 ATATAATAATA
          1 ATATAATAATA

      24065 TAAAAAAATA


Statistics
Matches: 24,  Mismatches: 0, Indels: 7
        0.77            0.00        0.23

Matches are distributed among these distances:
  15    3  0.12
  16   17  0.71
  17    4  0.17

ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33


Consensus pattern (15 bp):   
ATATAATAATAAAAT
Done.