The NYT , in its front-page coverage, says the plane was flying far lower than the rules for training missions allow.
( ( The NYT ) ( , ( ( in ( its ( front-page coverage ) ) ) ( , ( ( says ( ( the plane ) ( was ( flying ( ( far lower ) ( than ( ( ( the rules ) ( for ( training missions ) ) ) allow ) ) ) ) ) ) ) . ) ) ) ) )
(ROOT (S (NP (DT The) (NNP NYT)) (, ,) (PP (IN in) (NP (PRP$ its) (JJ front-page) (NN coverage))) (, ,) (VP (VBZ says) (SBAR (S (NP (DT the) (NN plane)) (VP (VBD was) (VP (VBG flying) (ADVP (ADVP (RB far) (JJR lower)) (SBAR (IN than) (S (NP (NP (DT the) (NNS rules)) (PP (IN for) (NP (NN training) (NNS missions)))) (VP (VBP allow)))))))))) (. .)))
According to the NYT, training missions did not allow planes to fly that low. 
( ( According ( to ( the NYT ) ) ) ( , ( ( training missions ) ( ( ( did not ) ( allow ( planes ( to ( fly ( that low ) ) ) ) ) ) . ) ) ) )
(ROOT (S (PP (VBG According) (PP (TO to) (NP (DT the) (NNP NYT)))) (, ,) (NP (NN training) (NNS missions)) (VP (VBD did) (RB not) (VP (VB allow) (S (NP (NNS planes)) (VP (TO to) (VP (VB fly) (S (NP (DT that)) (ADJP (JJ low)))))))) (. .)))