CESSHIV-1 database

General information on HIV-1 isolate

# 238

Accession number	AF411967
Name	99ZACM9
Subtype	C
Country	South Africa
Sampling year	1999
Patient	CM9

AF411967 isolate has foldings of [DIS region] [PBS region] [Core poly(A) site] [123nt 3' terminus] [USE domain, TAR, polyA] [USE region] [227nt 3' terminus] [Complete poly(A) region] [USE, TAR, polyA] .

The region encompassing DIS SD and Psi hairpins

The primary sequence:

ggactcggct tgctgaagtg cactcggcaa gaggcgagag -cggcgactgg tgagtacgcc gaattttatt tgactagcgg aggctagaag gagaga

Isolates with identical sequences of region:

AF443109(#207) AM076859(#1561) AM076860(#1562) AY463228(#326) AY878054(#512) AY878058(#516) DQ011172(#462) DQ011174(#464) DQ056410(#480) DQ093591(#495) DQ093605(#509) DQ369977(#643) DQ396368(#690)

The optimal secondary structure:

The suboptimal structures within ΔΔG ≤ 4 kcal/mole of the minimum free energy