Also and more so the very next chapter, Chapter 47.
Bellatrix's hands were still chained to the broomstick, so it was only a finger that came up and pointed when she said, "What is that?"
Harry followed the direction of her finger and saw... nothing in particular, actually...
Then Harry realized. After they'd gone up high enough, there hadn't been any clouds to obscure it any more.
"That is the Sun, dear Bella."
"You went to Azkaban," Harry whispered, "you took Fawkes with you, he saw - you saw - you were there, you saw - WHY DIDN'T YOU DO ANYTHING? WHY DIDN'T YOU LET THEM OUT?"
Sometimes you call your brain and it doesn't answer.
Every description of Hermione during chapters 80 and 81. Reminding you personally that this is an 12-year-old girl that thinks she is about to be thrown to the Dementors. (AND has been magically convinced that she's guilty to boot!)
While unlikely and even if true her responsibility was greatly diminished, it's possible that she is guilty: the pureblood faction would respond unpleasantly if the Blood-freezing Curse that she was alleged to have used were beyond the abilities of a merely better-than-average first year student, or were not cast by her wand (the ability to check what spells were most recently cast from a wand showed up very early in the fic). She'd been False Memory Charmed into believing that Malfoy was planning to do something ultimately terrible, but neither the government of the UK nor the US recognizes a legal ability to kill to prevent another citizen from enacting vague and far-off harmful acts: self-defense or defense-of-others requires immediacy that Malfoy would not have presented, since he wanted to challenge her again in the next morning. In short, she might well have been memory charmed (or Obliviated and then fed false information based on a previous save scum) in such a way as to believe that outright murder of someone who had just recently helped her was not only acceptable, but mandatory. The same girl that just a few chapters before could tell Light and Dark in a simple bright line. In a work by a writer who is very, very certain as to his opinions on the death penalty. So, how about that High Octane Nightmare Fuel and Tear Jerker combo?
Don't forget chapter 84,
It should have meant something to her, should have touched her. Should have made her felt better inside, that Dumbledore, who had seemed so reluctant before, had now acknowledged her as a hero.
She felt nothing.
Hermione let her head fall back to the bed, as Madam Pomfrey came and made her drink something that seared her lips like the afterburn of spicy food, and smelled even hotter, and didn't taste like anything at all. It meant nothing to her. She went on staring up at the distant stone tiles of the ceiling.
Hermione suddenly convulsed, her arms twitching into the air as though reaching up for something, and her eyes flew open again. There was a burst of something that was magic and also more, a shout louder than an earthquake and containing a thousand books, a thousand libraries, all spoken in a single cry that was Hermione; too vast to be understood, except that Harry suddenly knew that Hermione had whited out the pain, and was glad not to be dying alone. For a moment it seemed like the outpouring of magic might hold, take root in the castle's stone; but then the outpouring ended and the magic faded, her body stopped moving and all motion halted as Hermione Jean Granger ceased to exist.
Neville after Hermione dies and Harry moves to send him away from Hogwarts since it isn't safe:
"I don't want to say goodbye," Neville said. His voice was trembling, but he managed not to cry. "I want to stay here and fight with you against - against whatever's happening."
The empty air moved closer to him, and embraced him in a hug, and Harry Potter's voice whispered, "Tough luck."