What is difference between default mode and with parameter mode in HTSeq?

Question

[PK]

Hi, I am working with RNA-Sequencing data analysis. I was confused with my outputs. I have a condition for my analysis. First, i did HTSeq without parameters again I did HTSeq with additional parameters ( -s -t -m ). But i found the huge difference between these two outputs like two-fold increased with additional parameters mode. What does it mean? and which one is right otherwise is there any other possible things? help me

[WouterDeCoster]

Which part is still unclear after reading the manual?