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Operator
Welcome to the fiscal 2010 third-quarter results conference call. During today's presentation all parties will be in a listen-only mode. Following the presentation the conference will be open for questions. (Operator instructions). This conference is being recorded today, Thursday, January 28, 2010. I would now like to turn the conference over to Mr. Steven Plochocki, CEO. Please go ahead, sir.
Steve Plochocki - CEO
Welcome to the Quality Systems fiscal 2010 third-quarter earnings call. With me today are Paul Holt, our CFO; Phil Kaplan, our Chief Operating Officer; and Patrick Cline, our President.
Please note that the comments made on this call may include statements that are forward-looking within the meaning of securities laws, including without limitation statements related to anticipated industry trends, the Company's plans, products, perspective and strategies, preliminary and projected, and capital equity initiatives in the implementation of potential impacts of legal, regulatory or accounting requirements. I'll provide some opening comments and then turn it over to the team.
The Company posted record net revenues of $75 million in the third quarter, an increase of 14% from $65.5 million from the same period last year. The Company reported net income of $13.2 million in the third quarter, which remained unchanged from the comparable quarter last year. Fully diluted earnings per share were $0.46 in the quarter, which also remained unchanged when compared with $0.46 fully diluted earnings per share in the same quarter last year.
For the third quarter the Company's NextGen healthcare information systems division posted record revenue of $70.6 million, up 15% from the same period a year ago, and operating income of $24.5 million, an increase of 8% versus the comparable period last year.
We are pleased with the results for the quarter, which represent our team's ability to grow the business to record levels. Time and again we have stated that the Company continues to make the necessary investments in its infrastructure to ensure that we remain in a state of preparedness as the stimulus plan takes effect during the next three years. We are well-positioned to garner additional market share and fuel future growth as the healthcare industry shifts into an electronic-based medical records platform.
We will continue to capitalize on the significant business opportunities that lie ahead from the implementation of the American Recovery and Reinvestment Act. As you know, when the stimulus bill was signed February 17 of last year, the regulations relative to meaningful use and certification were to be finalized by December 31. As of today, the meaningful use standards are essentially done and are going through a comment period which will end March 15. The certification process is still not available. We know that CCHIT, the accrediting body that accredits us, is going to apply for status as a government-recognized certifying body. Our view is that post common period for meaningful use and post-certification process finalization, we are hopeful that by the end of March into April the uncertainties regarding these two regulations will be finalized and lifted and by early summer we'll have clarity for the EMR buying market.
All that aside, we continue to see ever-growing numbers in web hits, leads and pipeline expansion, which Phil will touch on in a moment. However, before I hand the ball off to Paul, we have asked our organization to prepare for the stimulus with infrastructure investments and precise plans, at the same time, to use no excuses approach to achieving our quantifiable goals and objectives. That requires surgical precision and execution. I'm very proud of our management team and all 1400 of our employee associates for accepting and delivering on that challenge. I now hand it off to Paul.
Paul Holt - CFO
Thanks, Steve, and hello, everyone. Our system sales this quarter grew 11% on a year-over-year basis to $27.7 million while consolidated maintenance, revenue cycle management, EDI and other services revenue grew 17% to $47.3 million. An important driver of our service revenue growth was revenue cycle management. We are seeing real traction in this space with category revenue growing 40% on a year-over-year basis to $6.8 million.
Our consolidated gross profit margin came in at 62.3%, down from 64.7% a year ago. The decrease in our gross margin over last year was due primarily to the inclusion of revenue cycle management services at lower margins. Revenue cycle management services represented 13% -- approximately 13% of our total revenue this quarter versus about 10% a year ago.
Our total SG&A expense increased by approximately $3.4 million to $22 million in this quarter compared to $18.6 million a year ago. The primary drivers of the increase were a $1.8 million increase in divisional SG&A, primarily from headcount increases expanding our sales, marketing and operations teams, as well as is a $0.6 million increase in related selling and marketing expenses. Additionally, there was a $1 million increase in corporate expenses, primarily headcount related but also tied to expanding our capabilities.
SG&A expense as a percentage of revenue this quarter was up to 29.3% compared to 28.4% a year ago. The Company's effective income tax rate increased slightly to 37.2% compared to 35.8% in the prior-year quarter. The effective tax rate in the prior year included a larger benefit from the R&D tax credit after this credit was reenacted during the prior-year quarter.
Moving on to divisional performance, system sales in the NextGen division increased 9% to $26.6 million compared to $24.4 million a year ago and continued growth in NextGen's base of installed users as well as revenue cycle management continue to drive higher maintenance, EDI, RCM and other revenue in that division. Total maintenance, EDI, revenue cycle and other revenues grew 19% over last year at $44 million versus $37.1 million a year ago.
As I stated earlier, our RCM revenue grew 40% over last year and was an important contributor to revenue growth in this category.
We continue to be encouraged by our opportunities in revenue cycle and believe we are well-positioned to succeed in this space. Our total contracted revenue not yet implemented is now up to $10.7 million annual run rate, and we saw our gross margin tick up this quarter to 25.8% versus 22.9% in the prior quarter.
Operating income in the NextGen division was up 7.5% to $24.5 million compared to $22.8 million a year ago.
In our Dental division, QSI Dental reported a year-over-year increase of 10%, reporting revenue of $4.4 million compared to $4 million a year ago. Operating income for the division was $916,000. That's down from $944,000 a year ago.
Moving onto our balance sheet, our total cash and marketable securities increased by approximately $3.7 million this quarter to $86.6 million or $3.02 a share. That compares to $82.9 million or $2.88 a share at the beginning of the quarter.
Our DSOs net of amounts included in accounts receivable and deferred revenue declined from a year ago to 83 days this quarter. Our DSOs based on gross receivables declined by 16 days compared to the prior-year quarter at 124 versus 140 a year ago. On a sequential basis our gross DSO's remained flat. Our DSO drop versus last year was driven by both improvements in our core collections as well as the effect of an increase in revenue cycle management revenue, which generally turns over at a faster pace compared to other revenue streams. And our DSO's by division this quarter were 89 days for the QSI division and 126 for the NextGen division.
Deferred revenue grew to $56.1 million compared to $48.1 million at the start of our fiscal year. And again, the primary driver of this increase was deferred implementation revenue.
Finally, for those of you who are tracking, our non-cash expenses break down as follows -- total amortization of capitalized software, $1,475,000; amortization of acquired intangibles, $377,000; depreciation expense, $919,000; stock option compensation expense, $129,000; and our investing activities for the quarter were as follows -- $1,787,000 capitalized software and fixed assets of $856,000.
I want to thank you all again for being on our call and your interest in our Company, and I'm going to turn things over to our Operating Officer, Phil Kaplan.
Phil Kaplan - COO
Thank you, Paul, and good morning, everybody. I'll start with a few comments on format. As Steve said, I will deliver management's prepared comments on the Company's operations, taking over from Pat Cline and Donn Neufeld and the C-level team, including Pat, will be available to answer questions at the end of my remarks. The format reflects the new management restructure that we announced in November, in which Scott Decker was promoted to run NextGen and Pat was promoted to President of QSI, allowing him to intensify his ongoing focus on forming and building significant strategic relationships.
In my comments I will attempt to stay consistent with information our investors are used to receiving.
Let's start with our QSI Dental unit. As with the last few quarters, we continued to have success in selling the QSI electronic dental record as an integrated solution with our NextGen EPM and EMR to federally funded entities. We had eight new joint sales during the quarter, as represented by our most recent announcement of our integrated win in Jordan Valley Community Health Center of Missouri. We also went live with our new dental software-as-a-service offering in Q3.
In Q3, QSI achieved its highest revenue in over two years as we continued to drive the unit back to a growth orientation under Donn Neufeld's leadership. We added one salesperson in the quarter for a total of four. Our pipeline is approximately $6 million, and the QSI pipeline is defined as sales situations where QSI is in the final three purchase choices and we believe that the sale will occur within 180 days.
Continuing with our NextGen healthcare unit, in Q3 NextGen executed approximately 68 new agreements. We recently announced a significant implementation of 1200 additional licenses with Trinity Health Network in Michigan, comprised of 44 acute care hospitals, 379 outpatient facilities and 33 long-term care facilities. This implementation demonstrates NextGen's ability to provide increasing value over time to the largest and most technologically visionary health systems.
Our sales force now has 92 quota-bearing personnel, and client interest in NextGen continues to build with the pipeline currently at approximately $113 million. I will caution investors that we are now generating our pipeline statistics directly from our relatively new CRM system, so it may not be completely apples to apples with the last quarter but will be run in a consistent manner from this point forward.
With the escalating meaningful use standards that the government has outlined for medical providers, we are focusing investment on client success with the NextGen EHR. At the same time we are preparing our Company to be an even more efficient platform for profitable growth with an increasing recurring revenue component.
I'll close, as Pat has historically, by thanking the great team at QSI and NextGen for continuing their work in providing solutions that improve the quality of care our clients provide to their patients. We're ready for questions, operator.
Operator
(Operator instructions) Newton Juhng.
Newton Juhng - Analyst
EDI services revenue only had a small sequential uptick this quarter, and it was a little bit below my expectation. I was wondering if there was any seasonality aspect to that business that I should be made aware of or whether, going forward, we can start seeing again some of the sequential increases that we were seeing in the past.
Paul Holt - CFO
Yes, there is a small amount of seasonality that goes into that. Similar to our implementation and training, when you get to that quarter during the holidays, sometimes is some things slow down. But we do expect to continue to see growth in that category going forward, though.
Newton Juhng - Analyst
And then, Paul, while I have you on the line here, capitalized software costs -- I just want to get an idea. Directionally, should we expect that number to rise as we finish off fiscal 2010 and move into 2011?
Paul Holt - CFO
Well, we have a lot of projects, very important projects to keep our software up front and make sure that we are continuing to be a certified provider and that we are meeting the meaningful use criteria on. So we certainly don't expect things to slow down in that area, although I know we really try not to be too specific about forward guidance.
Newton Juhng - Analyst
Understandable, but your comments are helpful there. Lastly, the other income line item -- I was just wondering -- in the past, it was kind of ARS-related. And I was wondering if you could tell me what that was referring to this quarter.
Paul Holt - CFO
Yes, that's ARS -- it's either interest income -- it's a combination of interest income and some amount related to our auction rate securities. As you know, we have $8.1 million in auction rate securities that we expect to be cashed out on this summer as a result of an agreement that we have with the broker that we purchased those from.
Operator
Michael Cherny.
Michael Cherny - Analyst
So for the last couple of quarters you guys have given a little bit of an update on the traction you've seen in the SaaS part of the business. Can you give some color into, of the 68 orders, what came from a SaaS perspective and what types of customers are looking to purchase that solution?
Pat Cline - President
We haven't seen a major uptick or a major downtick in SaaS -- number of SaaS contracts. The interest in that model seems to be picking up, but it isn't yet reflected in a big revenue gain or big contracting gain.
Michael Cherny - Analyst
From my notes, I seemed like your sales reps' number jumped pretty significantly. Is there anything specific to that, or is that just part of your continued preparation ahead of the release of stimulus funds?
Phil Kaplan - COO
Yes; we are building, continuing to build the sales force. To take advantage of the market opportunity, we added a number of reps around the country including some specialists that are focusing on our RCM growth, which allowed us to show the year-over-year gain that Paul mentioned.
Steve Plochocki - CEO
And if you remember a few quarters ago, we cited that by the end of our fiscal year, which will be March 31, we were hopeful to be at about 100 field reps or, as Phil likes to state, quota bearing reps. And I think we're on track for that.
Operator
George Hill.
George Hill - Analyst
It sounded like from your comments it felt like you had good visibility to an inflection point occurring maybe later this summer with respect to stimulus-related sales. Could you throw a little more color on your thoughts there?
Phil Kaplan - COO
Well, other than what I stated -- we are trying to follow this thing daily, as most are. We have two people in Washington DC that try to keep us as well informed as possible. Yes, we were initially a bit disappointed that things weren't finalized by December 31, as was supposed to have been done according to law. But we are now hopeful that if they can get through the comment period for meaningful use without too many changes, and if the government can move quickly in terms of accepting several certifying bodies to move ahead to certify companies like us, that by late spring/early summer those areas of uncertainty that have been an overhang in our sector for going on a year now -- those should be lifted by late spring at the latest, in our opinion, early summer.
George Hill - Analyst
Then maybe just a little more granular, then. I guess does your confidence in seeing an inflection point come from the expectation of the government finalizing meaningful use in the regulatory bodies, or does it come from customer conversations where people are saying, once we have certainty here, we're ready to move forward with plans?
Steve Plochocki - CEO
Well, what's happened in the past year -- when the bill was signed, it was a lot of uncertainty. Over the course of the last year, many people had done their homework and taken a good, hard look at who were the companies that appeared to be in the best position. And once they take a look at our company, they see that we've been CCHIT-accredited, we've passed CCHIT certification on the first round every time, we have top-of-class award-winning products. They come to the -- there's been a critical mass of thinking that has pushed a lot of the mid-to large group practices into a going forward position.
However, as we've always said, until all the barriers are removed, nobody is going to know for sure what the real rate of adoption is going to be. All that being said, web hits keep going up, leads keep going up, pipeline keeps going up, as Phil cited, and we have a very, very strong profile in our pipeline for the quarter we're in right now.
George Hill - Analyst
With respect to the new management structure, can you explain how the new structure -- maybe give some concrete examples of how that helps you guys execute, generate sales faster, deliver the revenue or earnings more profitably? Just because the Company seemed to be doing a great job before the change, I'm almost looking at it from the perspective of if it ain't broke, don't fix it. Can you talk about concrete examples of what's going to drive improvement?
Phil Kaplan - COO
I'll talk probably generally, and I'm not sure how concrete you want. But I think the concept is, Steve came in a little bit over a year ago to position the Company for growth rates to significantly higher revenue levels. And then Steve brought -- identified, obviously, the excellent performance that we had from Pat over many years in growing NextGen and also wanted to bring in me as chief operating officer to really focus on the internal dynamics of laying the ground systems for integration, better integration across the Company and greater efficiency, which you will see in quarters to come. We continue to invest heavily in R&D, the sales growth, as we publicly commented, because of the opportunity that we believe is there in the market.
And I'd mentioned in my comments also that, of course, one of the things that Pat has done extremely successfully for us is drive large relationships, and we want to be here, really, to back Pat up in those kinds of efforts. And then also Scott then, as the executive we promoted to be President of NextGen, is a very talented 20-year-plus healthcare IT veteran who literally -- I was sitting with Scott yesterday. He told me that he spent, I think, the first six months of this time at the Company on the road making sales calls to large systems.
So what you are seeing is more senior executives, which gives us more traction with larger accounts. And I'll steal a quote from Steve, which is the strength of the wolf is in the pack, and we've got a very talented, deep team.
Operator
Atif Rahim.
Atif Rahim - Analyst
I just want to follow up on the prior question. Your pipeline continues to grow and revenues numbers are coming in pretty strong. But yet, you seem to indicate that the lack of clarity around the meaningful use certification is an overhang. So is there anyway you could quantify what percentage or what amount of deals you are actually seeing that that's actually an obstacle in, the lack of clarity around meaningful use?
Steve Plochocki - CEO
I think the best way to characterize that, because we're talking about an entire sector, an entire healthcare sector. It's difficult to pinpoint. I think what we've seen over going on four quarters now since the bill has been signed is that, as people have become more comfortable, even though certification and meaningful use are not yet finalized, they are moving ahead. And the critical mass of those groups after they've done four quarters worth of homework is starting to dwarf those accounts or those doctors and practices that are still yet waiting for certainty. So it's an evolutionary process. We don't know what the rate of adoption will be post those issues. My belief is they'll be greater than what we are seeing now. And yet what we are seeing now is very meaningful for us.
That's the best way I can characterize it. I can't be specific on what's going on in every doctor's head out there. But I will tell you that, as time passes, people get more comfortable, they see us as a Company that's clearly going to be able to meet those standards, and they know that the clock is ticking in terms of the stimulus dollars that they can gain by becoming electronic.
Atif Rahim - Analyst
And then secondly, the quota-bearing salespeople that you added in the quarter, are they on track to execute at kind of the full quarter for this year, or are you starting them off a little bit, just given some of the uncertainty that's out there right now?
Steve Plochocki - CEO
I think it's hard to comment on specific reps, but what I can say is that we have a standard process that our sales team has developed, as they've been doing this for a long time, in which we have a -- there's a certain amount of forecast effort put in around ramp period. We have a significant training program that lasts for months, and we try very hard to hire proven people with very good sales skills that they've demonstrated numerically in previous positions.
Operator
Constantine Davides.
Constantine Davides - Analyst
One follow-up to that earlier question on sales reps. Does that 92 -- I heard you mention something about revenue cycle. Does that include your revenue cycle sales reps?
Phil Kaplan - COO
It does. To the extent -- so the 92, just to be clear, is reps that carry a quota. It doesn't include sales support or sales management. This is -- you add up the people that have specific quotas within NextGen.
Constantine Davides - Analyst
So is this an apples to apples number with the 72 from last quarter?
Phil Kaplan - COO
This is apples to apples with numbers we've given.
Steve Plochocki - CEO
The 92.
Constantine Davides - Analyst
All right, and I know you guys mentioned the Trinity contract. Just wondering if you can give us a sense for what the contribution in the quarter was from a revenue perspective, if that was meaningful at all.
Phil Kaplan - COO
We generally do not comment on specific timing and revenue size of deals. Frankly, we announced that deal much more for showing other customers what we're doing than to the Street.
Constantine Davides - Analyst
Not to beat a dead horse, but it sounds like your pipeline is improving pretty nicely. The economy is not eroding at the pace it was, certainly, last year. And meaningful use is all but behind you, so you got a decent amount of recurring revenue here at levels comparable to your publicly traded competitors. So I'm just wondering, do you guys feel like you are going to be in a good position to give investors some sort of base level guidance next quarter for the next fiscal year?
Steve Plochocki - CEO
Well, the issue of guidance -- as you know, we were looking to do that last year. It's important for us as an organization to understand some basis of predictability and consistency. And to do that, you need to have some kind of stabilization in run rates. We're getting closer to that feel, but right now it's not reasonable to assume that we will do that. But we're not ruling that out right now because everything that you cited, Constantine, is correct. We are starting to move, we think, past the midway point of the uncertainty issues. And as result of that, we're starting to get more visibility in terms of our own closure cycles.
If you remember, we talked about that quarters ago, where that visibility was lost because of the bill giving themselves from February 17 all the way until December 31 the finalized regs. So we have still not made a decision on that as of right now, but we are starting to see and have a little more visibility into what we would like to call predictability and consistency.
Operator
Jamie Stockton.
Jamie Stockton - Analyst
Thanks for taking my question. I guess most of them surround what you're doing to try to address the low end of the physician practice market, to try to penetrate those smaller practices. If you could talk about maybe are some of the new salespeople specifically targeted at the smaller practices, how your conversations have gone with the organizations that you think will be regional extension centers and then whether or not you are able to expand your reseller channel at this point, I would appreciate that.
Pat Cline - President
Sure. There was a lot to that question, so hopefully you won't mind there being a lot in my answer. Essentially, I think the global theme of your question was increased distribution, more specifically to the smaller practice market. And yes, we are very active in discussions with many of the firms that we believe will be regional extension centers. There's a meeting, in fact, going on tomorrow with one of them. Several of these entities have already received confidential notices that they have been or will be selected or indicating that they will and asking them to begin their budgeting process and those types of things.
Like our competitors, we are trying to keep our ear to the railroad track, so to speak, and figure out which entities will become regional extension centers. And we're trying to make arrangements with them. We are also working on partnerships in other areas with other companies to increase distribution.
Finally, I'll remind everyone that our broadening of our focus as opposed to a shift of focus into the small practice is something that we have been working on and have been committed to. We haven't seen a material number of new sales reps in our internal or what we call ISRs, internal sales force, that focuses primarily on the low end. But we have added a few that focus on practices of up to five providers. So in the 92 you would see -- would increase to 92, you would see an increase by a few.
I'll also remind everyone that even a lot of the large deals that we do, and frankly large deals that our competitors do, wind up in small practices. So, for example, we might have a large order from, as an example, Siemens, who is a partner of ours. And Siemens turns around and puts out licenses to their hospitals, who turn around and put them out to primarily smaller medical practices. And our customer base pretty closely, therefore, reflects the demographic with respect to practice size.
Jamie Stockton - Analyst
Just a couple of thoughts on that if you don't mind, Pat. One, with the Regional extension centers -- do you perceive most of them has looking to be exclusive with just a handful of EHR vendors?
Pat Cline - President
Yes. We feel that many of them will be exclusive with a handful of the vendors. Some of them have said just a couple, some of them have said three, some have said a little bit more than that. But we don't believe that the regional extension centers will market and support and implement every system out there. There are literally hundreds of electronic health -- or systems that call themselves electronic health records, let's say.
Jamie Stockton - Analyst
You guys have gotten the 2011 certifications that -- or I believe you have -- that CCHIT has put out there. Have you seen that make a difference, at this point?
Pat Cline - President
Tough to quantify. Anecdotally, I would say that it's something that our sales reps continue to use as they talk about our competitive advantages. But I think it's best talked about in the context of, as Phil mentioned or I think as Steve mentioned, the fact that NextGen has certified in the first round every year so prospective customers can feel comfortable that we are leading the pack in that regard.
Operator
Bret Jones.
Bret Jones - Analyst
I wanted to follow up on the Trinity deal. I know -- I think Paul was the one who mentioned it. The deal wasn't announced from Wall Street. But since the deal is out there and it has been announced, I was wondering if you could comment. It was my understanding that the deal was actually signed in September, so I was wondering if you could not give us a revenue amount but whether there was a contribution in the current quarter.
Phil Kaplan - COO
This is Phil, actually, I was the one that made the comment about Trinity and what -- we just don't comment on timing of deals. What I will say is there was revenue contribution from Trinity during the quarter, though, because we also said in the press release that they were an existing customer. I think that's particularly important because it shows that this is a very large and sophisticated, technologically visionary, as I said, health system that had been using our products for while and increased their investment in NextGen across their system.
Bret Jones - Analyst
Without getting into Trinity, I guess when we think about some of these enterprise deals, should we think of them as phase deals, or is the license revenue recognized generally at one point in time? Or, I'll use Trinity as an example, but any deal would suffice. Would you break up those 1200 licenses into segments, generally?
Steve Plochocki - CEO
Pat, you want to cover the enterprise solution?
Pat Cline - President
I would say that typically, software revenue is recognized in the quarter that the deal is executed. However, there are many exceptions to that. Certain parts of that contract or revenue are not recognized, the most obvious one being implementation services, which get recognized as they are rendered. And many things might affect that. It may be that extended payment terms caused the agreement to be booked more on a cash basis. It may be that software development commitments caused the agreement to be recognized using contract accounting or over the period that the software enhancements are delivered; or, in some cases, when all of the enhancements are completed.
So that's one of the reasons we don't get into exactly how much revenue we are recognizing and in what period because there's so much variability. But again, typically, the bulk of the software revenue is recognized in the quarter where the contract is executed.
Bret Jones - Analyst
Pat, while I have you here, if I could just circle back on how you are positioned for the low end of the market -- when I look at the competitors, they've had meaningful success in selling your SaaS model. And when I think about the market opportunity that's out there, the vast majority of it is in the small doc practices, which is where SaaS -- where the interest in SaaS really seems to lie. Would it be fair to say that you guys aren't aggressively pursuing the low end of the market? Or is there something else to attribute the lack of SaaS deals in your results versus the competitors that are out there?
Pat Cline - President
I don't think it would be fair to say that we are not pursuing the market. Again, we have broadened our focus. And I also don't think it would be fair to say that we haven't been successful in that market. Quarter in and quarter out, we sell many systems in that small practice segment, and that's one of the reasons that we're adding sales reps in that segment.
I can't speak for our competitors, but we still see quite an interest in the license model in that segment. So, as I stated in the past, we do see a trend, though I can't tell you it's been quarter to quarter in this particular quarter. The long-term trend is increasing demand in our SaaS model.
Bret Jones - Analyst
Is there something within your customer base that would explain the difference between the percentage of SaaS deals versus the competitors?
Pat Cline - President
Well, as you know, our typical customer tends to be the larger enterprise, as was referenced previously. In the current quarter, the number of seven-figure transactions that are in our pipeline is at an all-time high. And I think, when you get up to that level of large, and in many cases national purchasing entities, those entities have hosting relationships or their own data centers. And they prefer to host, rather than go through the ongoing expense that's associated with the SaaS model for that size entity.
Operator
Richard Close.
Richard Close - Analyst
I was wondering if you could comment a little bit. I know the Q will be coming out here shortly. But is it fair to assume your software revenue in the NextGen area was in and around that $20 million-$21 million?
Paul Holt - CFO
Yes. NextGen has the bulk of our software. As typical, NextGen has the bulk of our system sales.
Richard Close - Analyst
With respect to the gross margins on the revenue cycle side, you guys mentioned that they did uptick from 22% or so up to the 25% level. Can you give a little bit of commentary in and around that, in terms of what drove the sequential improvement on the rev cycle in the quarter?
Paul Holt - CFO
Well, as we've mentioned, there's a lot of startup sort of initial costs that we're working through. There's some learning curve aspects to what we are doing. We are bringing some customers over from existing platforms over to the NextGen platform. And you've got some operating efficiencies, and you have some size leverage where, as we can leverage things as we grow, we expect to be able to achieve better margins.
So that's something that's of keen interest here internally that we are working on. And we're happy to see that, see the results that we achieved. But frankly, we'd still like to do much better than that. So that's not -- I don't think -- we're not going to say that we are done.
Pat Cline - President
I'll just add to Paul as well that this is early days for QSI, for Quality Systems in the RCM business. We've been in business for 35 years. We've been in the RCM business for less than two years with the acquisition of HSI. And so we view the RCM businesses as a relatively lowly penetrated market with significant opportunity. So we're making sure that we are positioned as one of the world class leaders in the space, and that takes a lot of time and a lot of effort from quite a few executives and employees that are supporting our efforts there, specifically around the gross margin, the investment of establishing a base that we can fix as much as possible over time, where we generate the maximum amount of variable contribution from incremental revenue that we are driving through the sales team overall and through RCM sales specialists that align within our sales team.
Richard Close - Analyst
There's been some other companies have talked about recent deals in terms of competitive takeaways. Maybe, Pat, if you could talk a little bit about that? You had mentioned the number of seven-figure deals in your pipeline being the largest in the Company's history. Are any of those deals -- would they be considered takeaways from someone else? And maybe, how are you guys doing? Are you retaining your larger customers?
Pat Cline - President
To the first part of your question, yes, there are competitive takeaways in our pipeline. I'll add that there were multiple competitive takeaways reflected in our numbers and in last quarter's sales. And to the second part of your question, yes, we are doing a great job, we feel, of retaining our large customers.
Operator
Greg Bolan.
Unidentified Participant
This is [Eric] in for Greg. Steve, can you talk about and maybe describe discussions that you might be having with health systems that might be looking to touch non-employed physicians via subsidization of EHR purchases?
Paul Holt - CFO
Is this related around to whether or not hospital-employed physicians are receiving stimulus money? Is that what this question is directed at?
Unidentified Participant
That's correct.
Paul Holt - CFO
Yes because -- now, my understanding, and I think Pat and Steve may want to join in, is that's not a huge portion of the doctors that are out there. But Pat, do you have any color on that?
Pat Cline - President
I think the question may have come from a slightly different angle; correct me if I'm wrong. When we typically sell to the large regional or national entities, generally the initial sales go to their owned or employed, let's say, physicians. And affiliated with each one of these entities can be 100 or in some cases many thousands, in a case like the example that we used with Trinity, of physicians around the country. And these entities do want to partner with us to market to, joint market, to all of those community physicians. And we do have a formal program that we roll out with those entities to do so, and that program includes special pricing and interface and interoperability considerations and implementation and support considerations and many of those things.
And the interest in that program; again, it's a formal program we developed many quarters ago, has been phenomenal lately.
Unidentified Participant
Perfect, thank And then just one last question, and I apologize if I missed this. But, Paul, did you call out the RCM backlog?
Paul Holt - CFO
Yes, $10.7 million.
Operator
Corey Tobin.
Corey Tobin - Analyst
First, a housekeeping question. Do you have the stock count breakout across the different expense line items?
Paul Holt - CFO
We'll have it in the Q, which, as we usually do, we'll have that filed here shortly.
Corey Tobin - Analyst
Two other things, if I could. Just looking at the rev cycle line, I know there's a lot of gives and takes here, given the acquisitions and the ramp-up of implementation, new accounts and whatnot. But can we look at the $9.6 million booked this quarter as a baseline from which you should grow that line item going forward?
Paul Holt - CFO
Where is that nine point -- oh, the revenue number. You're asking about the baseline number?
Corey Tobin - Analyst
Right. Can we use that number as the new baseline upon which that stream should grow going forward?
Paul Holt - CFO
Yes, yes. That's the nice thing about the RCM business is that it's extremely recurring in nature. You sign somebody up to perform those services for, and that's an ongoing revenue stream that you have.
Corey Tobin - Analyst
You mentioned the change in your CRM system. I know it's tough to get a high degree of accuracy on this, but can you give us a feeling for, if there was an error in the manner or, I guess, a change in which the new pipeline number is -- if there was a change in how you've come up with the new pipeline number with the new CRM system versus how you had before, can you just give us a feeling for how big the magnitude around the change would be?
I was going to say, if there was -- you said it might not be apples to apples. I guess I'm asking, if it's not apples to apples, can you just give us a feeling for how big the delta could be?
Paul Holt - CFO
Yes. I wanted to put that caution out there because of the system change, and we don't think that it would be a significant difference in methodology, fairly minimal. But it's just something that when we talked about it internally, I wanted to put that warning out there.
Operator
[Fu Muma]
Unidentified Participant
My question has to go to the Trinity Health deal. I know you guys are not providing much detail in terms of revenue recognition in the quarter. But can you at least talk to where you stand from an implementation track? I understand that it's 1200 physicians across the deal and, if I'm correct, that approximately 400 of those physicians were already implemented on your EMR solution prior to the extension of the deal. Could you just give us a little bit more detail around the implementation?
Pat Cline - President
I think this is a relatively typical sale. When you are rolling out the number of providers, it's a multi-quarter if not multi-year type of rollout. I think that's about as much detail as we'll get into on that particular deal.
Unidentified Participant
And if I look at the software margins in the quarter, somewhere closer to 88%, could you talk about what drove the increase from where that stood in the sequential quarter in 2Q?
Paul Holt - CFO
Yes. Hardware is a very critical component. How much hardware do you have in that system sales line, because hardware has very little -- very low gross margins compared to software. So your mix of software versus hardware can have a huge impact on what you are reporting in gross margin line. And what that says is that we had less hardware this quarter than we've had previously.
Unidentified Participant
My last question would be towards the general preferences among customers. As you talk with them, what is their -- or how would you gauge their level of awareness around the stimulus incentives and whether or not you see a change in conversation now that the proposed guidelines are published from HHS?
Steve Plochocki - CEO
Well, as we have been saying, as time passes everybody is getting a little smarter and a little more tuned into not only who are the right companies to go forward with but also in terms of their view and feel for which ones, which of those companies are going to be able to meet the standards.
So it's hard to pinpoint it directly. But as I said before, as I've characterize before, we are going on almost a year since the bill has been signed. A lot of homework has been done. Smart group practices have done enough homework to know that they should be moving ahead, and they are doing that as a result of our pipeline that Phil talked about and some of the very large deals in our pipeline that Pat sided just a minute ago.
Are there other groups that are waiting for finalization? Absolutely. But they are being dwarfed by the pipeline fill we're getting from those groups that have essentially reached their comfort level to start moving ahead.
Unidentified Participant
With respect to the way you do calculate the pipeline, can we expect at some point an equivalent Member for the year-ago quarter or the 2Q quarter for you guys?
Paul Holt - CFO
We're not going to retroactively talk about pipeline, but we'll talk about it at a point in time. And the methodology will be consistent with the investment in upgrade we've made recently in our CRM system. It's all very automated throughout the sales force.
Steve Plochocki - CEO
And just a little more color on that. You know, for three quarters now we've been talking about our web hits being up nearly 100%, our leads off of that over 100%. Phil cited the pipeline, Pat cited the depth of the pipeline. We don't anticipate that trending anywhere but directionally up, because we haven't even started this whole stimulus move yet because the regs aren't finalized.
So we love the position we are in, and we love the timing of the things we are doing here in the Company to prepare for the stimulus.
Operator
[Brian Delaney].
Brian Delaney - Analyst
As it relates to the pipeline, can you guys just talk about what the margin profile of what's getting put in the pipeline look like relative to the current run rate? Meaning, what does the overall environment look like?
Steve Plochocki - CEO
I'm sorry? The overall environment for margins? Is that what you asked? I think you got cut off, and we missed the last part of your question.
Operator
Sorry about that, sir. We are experiencing technical difficulties. If you could please queue up?
Phil Kaplan - COO
I believe the question centered around how much hardware is in the pipeline numbers. I think, at this point, we're not going to comment on that. It's too much possible change. It really would be difficult to try to get at that, I think. So it's not something we historically have commented on, and I don't think we're going to start now.
Pat Cline - President
I agree.
Steve Plochocki - CEO
Operator, due to that difficulty, we will take one more question if there are any more questions.
Operator
Sir, there are currently no questions in the queue.
Steve Plochocki - CEO
Well, again, we want to thank everyone for your support. As we have stated for the last three quarters, we are extremely bullish on the prospects for the future. We like where we are positioned in terms of the moves we've made internally. We like the fact that we've made the right investments, in our opinion, to prepare for the stimulus. And we are also very pleased with the fact that, along with the fact that we are making these investments, we've still been able to use a no-excuses approach to delivering results.
So it's our hope and desire and, clearly, our task to continue to achieve in that manner. And we look forward to speaking to all of you in the future, and thank you for participating today. Bye, now.
Operator
Ladies and gentlemen, this concludes the fiscal 2010 third-quarter results conference call. If you would like to listen to a replay of today's conference, please dial 1-800-406-7235 or 303-590-3030 with the passcode 420-6115. ACT would like to thank you for your participation; you may now disconnect.