[Bioclusters] quick look see at fractal computing.

[Nick Robertson]

Hi James,

 

I re-ran your query on our system and on the NCBI website, and found that
our results matched NCBI's online results even after an NT database refresh.
To give you an idea of the differences, here are snippets of the summaries:

 

NCBI online:

----------------------------------------------------------------------------
------------------------

 
Score     E

Sequences producing significant alignments:
(Bits)   Value

 

gi|58696605|emb|BX324134.11|  Zebrafish DNA sequence from clon...  1283
0.0   

gi|58037056|emb|CR382292.9|  Zebrafish DNA sequence from clone...  1235
0.0   

gi|66766177|emb|CR752650.10|  Zebrafish DNA sequence from clon...  1128
0.0   

gi|78611226|emb|CR788303.14|  Zebrafish DNA sequence from clon...  1011
0.0   

gi|42734280|emb|BX088536.8|  Zebrafish DNA sequence from clone...   993
0.0   

gi|46241816|emb|BX088654.11|  Zebrafish DNA sequence from clon...   987
0.0   

gi|42558145|emb|AL929105.27|  Zebrafish DNA sequence from clon...   950
0.0   

gi|38143448|emb|BX005158.8|  Zebrafish DNA sequence from clone...   930
0.0   

gi|60219425|emb|BX666059.13|  Zebrafish DNA sequence from clon...   928
0.0   

gi|63025084|emb|BX511111.16|  Zebrafish DNA sequence from clon...   866
0.0   

gi|59891285|emb|BX927256.13|  Zebrafish DNA sequence from clon...   864
0.0

----------------------------------------------------------------------------
------------------------

 

MPT results:

----------------------------------------------------------------------------
------------------------

 
Score    E

Sequences producing significant alignments:
(bits)   Value

 

gi|58696605|emb|BX324134.11| Zebrafish DNA sequence from clone D...  1283
0.0  

gi|58037056|emb|CR382292.9| Zebrafish DNA sequence from clone DK...  1235
0.0  

gi|66766177|emb|CR752650.10| Zebrafish DNA sequence from clone C...  1128
0.0  

gi|78611226|emb|CR788303.14| Zebrafish DNA sequence from clone D...  1011
0.0  

gi|42734280|emb|BX088536.8| Zebrafish DNA sequence from clone CH...   993
0.0  

gi|46241816|emb|BX088654.11| Zebrafish DNA sequence from clone C...   987
0.0  

gi|42558145|emb|AL929105.27| Zebrafish DNA sequence from clone C...   950
0.0  

gi|38143448|emb|BX005158.8| Zebrafish DNA sequence from clone DK...   930
0.0  

gi|60219425|emb|BX666059.13| Zebrafish DNA sequence from clone D...   928
0.0  

gi|63025084|emb|BX511111.16| Zebrafish DNA sequence from clone R...   866
0.0  

gi|59891285|emb|BX927256.13| Zebrafish DNA sequence from clone C...   864
0.0

----------------------------------------------------------------------------
------------------------

 

Your results:

----------------------------------------------------------------------------
------------------------

 
Score    E

Sequences producing significant alignments:
(bits)   Value

 

emb|BX324134.11| Zebrafish DNA sequence from clone DKEY-103K8 in...  1074
0.0  

emb|CR788303.14| Zebrafish DNA sequence from clone DKEY-178E17 i...  1031
0.0  

emb|BX088654.11| Zebrafish DNA sequence from clone CH211-195H6 i...   995
0.0  

emb|AL929105.27| Zebrafish DNA sequence from clone CH211-142D6 i...   971
0.0  

emb|CR752650.10| Zebrafish DNA sequence from clone CH211-140L3 i...   955
0.0  

emb|BX005158.8| Zebrafish DNA sequence from clone DKEY-222N6 in ...   946
0.0  

emb|BX511111.16| Zebrafish DNA sequence from clone RP71-62I8 in ...   872
0.0  

emb|AL929548.8| Zebrafish DNA sequence from clone CH211-159E17, ...   870
0.0  

emb|BX957309.6| Zebrafish DNA sequence from clone CH211-113P19 i...   860
0.0  

emb|AL844150.6| Zebrafish DNA sequence from clone DKEY-246K2, co...   842
0.0 

emb|CR847981.15| Zebrafish DNA sequence from clone CH211-195H23 ...   769
0.0  

----------------------------------------------------------------------------
------------------------

 

It may be that the only differences are those of the NT database, as MPT's
initial results were still very similar to NCBI's results, with the only
alignments missing being those that were found when the NT database was
refreshed. It is still unclear to me why your results are markedly different
from NCBI and MPT, but it's probably related to search parameters or some
other difference. 

 

The complete results files have been posted to your user results directory
on www.mptbiotech.com <http://www.mptbiotech.com/>  if you wish to examine
them more closely. 

 

Thank you for challenging us.  We want to make sure users are confident
enough to be able to publish their results if they so choose.  Feel free to
contact us (or me directly) with any further concerns or questions.

 

Nick Robertson

==========================

Principal Engineer

Massively Parallel Technologies, Inc.

(303) 926-1231

(303) 915-4609 (cell)

email: nick at massivelyparallel.com

www.massivelyparallel.com

==========================

 

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