The Thevenin equivalent of the base pair of resistors gives you the unloaded Thevenin voltage and the unloaded Thevenin resistance. Of course, the BJT base loads the divider. So there is indeed a drop, which as you say, changes the actual base voltage of the BJT.
You already know all the details, really. You have set up the equivalent but just didn't follow through.
Let's apply KVL. Start with the Thevenin voltage and work your way around to the \$R_E=1\:\textrm{k}\Omega\$ resistor's grounded end.
$$V_{TH}-I_B\cdot R_{TH} - V_{BE} - I_E\cdot R_E = 0\:\textrm{V}$$
You should be able to follow the logic needed to write that out. Just walk through it and I'm sure you will get the same thing.
Now. You know that \$I_E=\left(\beta+1\right)\: I_B\$, so:
$$\begin{align*}
V_{TH}-I_B\cdot R_{TH} - V_{BE} - \left(\beta+1\right)\: I_B\cdot R_E &= 0\:\textrm{V}\\\\
V_{TH} - V_{BE} &= I_B\cdot R_{TH}+ \left(\beta+1\right)\: I_B\cdot R_E\\\\
V_{TH} - V_{BE}&= I_B\cdot \left(R_{TH}+ \left(\beta+1\right) R_E\right)\\\\
I_B &= \frac{V_{TH} - V_{BE}}{R_{TH}+ \left(\beta+1\right) R_E}
\end{align*}$$
Now you can compute \$I_B\$. It will be a little different depending upon the value of \$V_{BE}\$ and \$\beta\$ you use, of course. And these values definitely vary depending upon the BJT (and even among the same part number and batch.) But it should be reasonably close.
You can now use this estimate of \$I_B\$, multiplying it by the Thevenin resistance you computed earlier, to work out the voltage at the base as: \$V_B=V_{TH}-I_B\cdot R_{TH}\$. (Noting that we are discussing NPN.) You can see this fact from your own right-hand picture! Obviously, that must be the case.
That's really all there is.
Well... Not exactly. If you like math you can replace the value of \$V_{BE}\$ with the equation for it based upon the base current (which looks like the Shockley diode equation.) But then the solution requires the LambertW function, which you probably aren't familiar with. And it doesn't really help that much with practical designs anyway. Besides, there's still the effects of temperature; variations in the saturation currents over device and temperature; variations of \$\beta\$ over device, temperature, and collector current; basewidth modulation and the Early Effect; and... well, life is a lot less complicated and almost as good if you just don't worry yourself. (Unless you like math. ;)