As for the Septuagint comparison, this analysis relies on the Table of Quotations in New Testament Order. That table contains a column entitled "Meaning"  with annotations:   "J," "H" or "D."  A "J" indicates that the quotation agrees with the Septuagint agains the sense of the Masoretic text, an "H" that the quotation supports the Hebrew sense against the Septuagint.  The quotation is marked by a "D" when the quotation disagrees in meaning with both the Septuagint and the Hebrew.  The following table summarizes the disagreement of the New Testament with the Hebrew Old Testament as a source.  For each New Testament book, the number of quotations from each Old Testament book is shown, but the number of times the New Testament reading differs in meaning from the Hebrew Old Testament text - both "J" and "D" readings - is also indicated.  Thus, Matthew differs in sense from the Masoretic text 16 times out of 54 quotations.  Nine of these disagreements occur when Matthew quotes from Isaiah.  Looking along the rows, note that Deuteronomy is quoted against the sense of the Masoretic text 13 times, 2 of these quotations occurring in the book of Romans.
 

The following two tables summarize these results, providing percentage agreement for each Old Testament and New Testament book.  For instance, Zechariah is quoted 7 times, 6 of which are in agreement with the meaning of the Masoretic text.  Thus, the New Testament follows the Hebrew version of Zechariah 85.7% of the time.  Similarly, Luke follows the Masoretic reading in 21 of 26 passages, for a percentage agreement = 80.1%.
 

Genesis 87.1 Exodus 92.6 Leviticus 100 Numbers 50 Deuteronomy 70.0 1 Samuel 100 2 Samuel 100 1 Kings 100 Job 100 Psalms 73.9 Proverbs 16.7 Isaiah 33.6 Jeremiah 60 Ezekiel 100 Daniel 100 Hosea 42.9 Joel 50 Amos 0 Jonah 100 Micah 50 Habakkuk 50 Haggai 100 Zechariah 85.7 Malachi 100 Total 68.3 Percentage Agree- ment by Old Testament Book

Although the agreement between the New Testament and the Septuagint was seen to be lowest in the gospels, the Masoretic text fared even more poorly here.  Proceeding as before, we find the following for natural New Testament groupings: Synoptic gospels - 76.6 John                       - 71.4 Acts                       - 75.0 Pauline epistles    - 65.2 Hebrews                - 54.1 Catholic epistles  - 52.9 Luke's quotations agree in meaning with the Masoretic text 77.3% of the time.  It appears, then, that agreement with the Masoretic text is best in the gospels, and considerably worse in Paul's writings and the other epistles. The most remarkable number in the table at the left is the agreement percentage for the book of Isaiah, only 33.6%.  Other important books - Psalms and Deuteronomy - also show strong divergence from the Masoretic text.  But the New Testament's tendency to disagree with Isaiah is striking.

Matthew 70.4 Mark 85.2 Luke 80.1 John 71.4 Acts 75.0 Romans 58.2 1 Cor 70.6 2 Cor 80.0 Galatians 60.0 Ephesians 100 1 Timothy 100 2 Timothy 0 Hebrews 54.1 James 75.0 1 Peter 41.7 2 Peter 100 Total 68.3 Percentage Agreement by New Testament Book