Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004766.1 Corchorus capsularis cultivar CVL-1 contig04784, 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: 10877
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36


Found at i:1840 original size:14 final size:15

Alignment explanation


    Indices: 1821--1849  Score: 51
    Period size: 14  Copynumber: 2.0  Consensus size: 15

       1811 CATGCGGAAT

                           
       1821 ATTAGACGGG-TAAA
          1 ATTAGACGGGATAAA

                           
       1835 ATTAGACGGGATAAA
          1 ATTAGACGGGATAAA

       1850 TAGTATATAT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14   10  0.71
  15    4  0.29

ACGTcount: A:0.45, C:0.07, G:0.28, T:0.21


Consensus pattern (15 bp):   
ATTAGACGGGATAAA

Found at i:6964 original size:26 final size:26

Alignment explanation


    Indices: 6927--6984  Score: 75
    Period size: 27  Copynumber: 2.2  Consensus size: 26

       6917 CATGTGTCCC

                                       
       6927 TTTATATATTAC-TCCCTTTGTTCCTT
          1 TTTATATATTACAT-CCTTTGTTCCTT

                                        
       6953 TTTATA-AGTTACAATCCTTTGTTCCTT
          1 TTTATATA-TTAC-ATCCTTTGTTCCTT

                 
       6980 TTTAT
          1 TTTAT

       6985 TTGTCATCTT


Statistics
Matches: 29,  Mismatches: 0, Indels: 5
        0.85            0.00        0.15

Matches are distributed among these distances:
  25    1  0.03
  26   10  0.34
  27   17  0.59
  28    1  0.03

ACGTcount: A:0.19, C:0.19, G:0.05, T:0.57


Consensus pattern (26 bp):   
TTTATATATTACATCCTTTGTTCCTT
Done.