Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001456.1 Corchorus capsularis cultivar CVL-1 contig01456, 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: 5730
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35


Found at i:1105 original size:13 final size:13

Alignment explanation


    Indices: 1080--1113  Score: 50
    Period size: 13  Copynumber: 2.5  Consensus size: 13

       1070 CTTTTGTAAG

                          
       1080 TTTCTTCCTTTCCT
          1 TTTCTT-CTTTCCT

                         
       1094 TTTCTTCTTTCCT
          1 TTTCTTCTTTCCT

              *    
       1107 TTCCTTC
          1 TTTCTTC

       1114 GGTTCACAAT


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  13   13  0.68
  14    6  0.32

ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65


Consensus pattern (13 bp):   
TTTCTTCTTTCCT

Found at i:1266 original size:2 final size:2

Alignment explanation


    Indices: 1259--1289  Score: 62
    Period size: 2  Copynumber: 15.5  Consensus size: 2

       1249 GGGCAGGCAT

                                                          
       1259 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       1290 TCGTCTATTT


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   29  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.