Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009447.1 Corchorus capsularis cultivar CVL-1 contig09468, 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: 2816
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35


Found at i:1226 original size:19 final size:18

Alignment explanation


    Indices: 1202--1237  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       1192 TGAAGATTTA

                               
       1202 TTGAAGATAATTTGAAGAT
          1 TTGAAGATAA-TTGAAGAT

                    *        
       1221 TTGAAGATCATTGAAGA
          1 TTGAAGATAATTGAAGA

       1238 ATTATTTCAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33


Consensus pattern (18 bp):   
TTGAAGATAATTGAAGAT

Found at i:1861 original size:18 final size:17

Alignment explanation


    Indices: 1834--1869  Score: 63
    Period size: 18  Copynumber: 2.1  Consensus size: 17

       1824 TTTCTCTTCA

                             
       1834 TCTATTTTTCTTCTAGT
          1 TCTATTTTTCTTCTAGT

                              
       1851 TCTAGTTTTTCTTCTAGT
          1 TCTA-TTTTTCTTCTAGT

             
       1869 T
          1 T

       1870 TTAGGTTGAG


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  17    4  0.22
  18   14  0.78

ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64


Consensus pattern (17 bp):   
TCTATTTTTCTTCTAGT
Done.