CloneSet245


Clone Mass	Clones in CloneSet	Parameter Count	Clone Similarity	Syntax Category [Sequence Length]
4	3	5	0.963	stmt_list[2]

Clone Abstraction

Parameter Bindings

Clone Instance (Click to see clone)	Line Count	Source Line	Source File
1	4	692	Bio/Blast/NCBIStandalone.py
2	8	703	Bio/Blast/NCBIStandalone.py
3	7	713	Bio/Blast/NCBIStandalone.py

Clone Instance
1

Line Count
4

Source Line
692

Source File

Bio/Blast/NCBIStandalone.py

        attempt_read_and_call(uhandle,consumer.query_length,has_re = re.compile("[Ll]ength of query")) 

        read_and_call(uhandle,consumer.database_length,has_re = re.compile("[Ll]ength of \\s*[Dd]atabase"))

Clone Instance
2

Line Count
8

Source Line
703

Source File

Bio/Blast/NCBIStandalone.py

        # Not in blastx 2.2.1
        attempt_read_and_call(uhandle,consumer.effective_query_length,has_re = re.compile("[Ee]ffective length of query")) 



        # This is not in BLASTP 2.2.15
        attempt_read_and_call(uhandle,consumer.effective_database_length,has_re = re.compile("[Ee]ffective length of \\s*[Dd]atabase"))

Clone Instance
3

Line Count
7

Source Line
713

Source File

Bio/Blast/NCBIStandalone.py

        # Not in blastx 2.2.1, added a ':' to distinguish between
        # this and the 'effective search space used' line
        attempt_read_and_call(uhandle,consumer.effective_search_space,has_re = re.compile("[Ee]ffective search space:")) 


        # Does not appear in BLASTP 2.0.5
        attempt_read_and_call(uhandle,consumer.effective_search_space_used,has_re = re.compile("[Ee]ffective search space used"))

Clone Abstraction

Parameter Count: 5

Parameter Bindings

# Not in blastx 2.2.1
# Not in blastx 2.2.1, added a ':' to distinguish between
# this and the 'effective search space used' line
attempt_read_and_call(uhandle,consumer. [[#variable77c13b60]],has_re = re.compile( [[#variable77c13aa0]])) 
 [[#variable77c12c00]](uhandle,consumer. [[#variable71b37b60]],has_re = re.compile( [[#variable71b373e0]]))

CloneAbstraction

Parameter Bindings
Parameter Index	Clone Instance	Parameter Name	Value
1	1	`[[#77c13b60]]`	query_length
1	2	`[[#77c13b60]]`	effective_query_length
1	3	`[[#77c13b60]]`	effective_search_space
2	1	`[[#77c13aa0]]`	"[Ll]ength of query"
2	2	`[[#77c13aa0]]`	"[Ee]ffective length of query"
2	3	`[[#77c13aa0]]`	"[Ee]ffective search space:"
3	1	`[[#77c12c00]]`	read_and_call
3	2	`[[#77c12c00]]`	# This is not in BLASTP 2.2.15 attempt_read_and_call
3	3	`[[#77c12c00]]`	# Does not appear in BLASTP 2.0.5 attempt_read_and_call
4	1	`[[#71b37b60]]`	database_length
4	2	`[[#71b37b60]]`	effective_database_length
4	3	`[[#71b37b60]]`	effective_search_space_used
5	1	`[[#71b373e0]]`	"[Ll]ength of \\s*[Dd]atabase"
5	2	`[[#71b373e0]]`	"[Ee]ffective length of \\s*[Dd]atabase"
5	3	`[[#71b373e0]]`	"[Ee]ffective search space used"