Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01012975.1 Corchorus capsularis cultivar CVL-1 contig12996, 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: 2860
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29


Found at i:1359 original size:27 final size:27

Alignment explanation


    Indices: 1327--1398  Score: 99
    Period size: 27  Copynumber: 2.7  Consensus size: 27

       1317 GGTCGTCCAA

                                 *     
       1327 GGGTATTTTGGTCATTTTCGCGCCCAG
          1 GGGTATTTTGGTCATTTTCGCACCCAG

                               *  *    
       1354 GGGTATTTTGGTCATTTTCTCATCCAG
          1 GGGTATTTTGGTCATTTTCGCACCCAG

               *        *     
       1381 GGGCATTTTGGTAATTTT
          1 GGGTATTTTGGTCATTTT

       1399 TACACTCGGG


Statistics
Matches: 40,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  27   40  1.00

ACGTcount: A:0.14, C:0.17, G:0.26, T:0.43


Consensus pattern (27 bp):   
GGGTATTTTGGTCATTTTCGCACCCAG

Found at i:1986 original size:23 final size:22

Alignment explanation


    Indices: 1943--1990  Score: 53
    Period size: 23  Copynumber: 2.1  Consensus size: 22

       1933 CAAAAATAAG

                                   
       1943 AATACAAAAAATATAATAATAGT
          1 AATACAAAAAATATAATAATA-T

                   *  *            
       1966 AATACAAGAATTA-AATAAATAT
          1 AATACAAAAAATATAAT-AATAT

               
       1988 AAT
          1 AAT

       1991 TTTGGAGATC


Statistics
Matches: 22,  Mismatches: 2, Indels: 3
        0.81            0.07        0.11

Matches are distributed among these distances:
  22    7  0.32
  23   15  0.68

ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27


Consensus pattern (22 bp):   
AATACAAAAAATATAATAATAT
Done.