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Alignment Text XML ASN.1 Hit Table(text) Hit Table(csv)	Search Strategies ASN.1	PssmWithParameters ASN.1	[?]

The Download link provides BLAST output that may be used as input to another program. This includes parseable formats such as the tabular report or XML as well as the Search Strategy files read by the BLAST+ applications. More details on the parseable (XML, tabular, and ASN.1) reports can be found at http://www.ncbi.nlm.nih.gov/books/NBK21097/

The following formats are offered under the Alignment section:
1). "Text". Non-HTML standard BLAST report.
2). "XML". XML report based upon the DTD at http://www.ncbi.nlm.nih.gov/data_specs/dtd/NCBI_BlastOutput.dtd
3). "ASN.1" Alignment. This is the alignment written out in Abstract Syntax Notation 1.
4). "Hit Table(text)". The tabular report as text.
5). "Hit Table(csv)". The tabular report ready for import into spread-sheet programs like Excel.

The following report is offered under the Search Strategy section:
1). "ASN.1" Search Strategy. A record of the parameters, query, and database used in the search. This file can be used to start a stand-alone BLAST search, see http://www.ncbi.nlm.nih.gov/books/NBK1763/#CmdLineAppsManual.I455_BLAST_search_stra

Nucleotide Sequence (16 letters)

RID: PHWP1JNZ014 (Expires on 05-07 22:33 pm)

Query ID: lcl|59987; lcl|59987
Description: None
Molecule type: nucleic acid
Query Length: 16


Database Name: pdb
Description: PDB nucleotide database See details
Program: BLASTN 2.2.29+ Citation

Other reports: Search Summary [Distance tree of results]

Search Parameters
Search parameter name	Search parameter value
Program	blastn
Word size	7
Expect value	1000
Hitlist size	100
Match/Mismatch scores	1,-3
Gapcosts	5,2
Filter string	F
Genetic Code	1

Database
Database parameter name	Database parameter value
Posted date	Apr 29, 2014 3:14 AM
Number of letters	885,284
Number of sequences	8,975
Entrez query	none

Karlin-Altschul statistics
Params	Ungapped	Gapped
Lambda	1.37406	1.37406
K	0.710603	0.710603
H	1.30725	1.30725

Results Statistics
Results Statistics parameter name	Results Statistics parameter value
Length adjustment	11
Effective length of query	5
Effective length of database	786559
Effective search space	3932795
Effective search space used	3932795

Descriptions

, Reading indexes 1-5, displaying indexes 1-5

Sequences producing significant alignments:

Select:All None Selected:0

Sequences producing significant alignments:
Select for downloading or viewing reports	Description	Max score	Total score	Query cover	E value	Ident	Accession
1Select seq pdb\|3J5A\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Post- Translocation State (post1, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J5A_A
2Select seq pdb\|3J58\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J58_A
3Select seq pdb\|3J56\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5a, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J56_A
4Select seq pdb\|3J54\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J54_A
5Select seq pdb\|3J52\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1a, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J52_A
6Select seq pdb\|3J51\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre3, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J51_A
7Select seq pdb\|3J50\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Intermediate Pre- Translocation State (pre2, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J50_A
8Select seq pdb\|3J4X\|A	Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1b, 50s Subunit)	32.2	77.3	100%	8e-04	100%	3J4X_A
9Select seq pdb\|3J3F\|5	Chain 5, Structure Of The H. Sapiens 60s Rrna	18.3	128	100%	12	100%	3J3F_5
10Select seq pdb\|3J3E\|5	Chain 5, Structure Of The D. Melanogaster 60s Rrna	18.3	63.4	100%	12	100%	3J3E_5
11Select seq pdb\|3J0O\|8	Chain 8, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fitted To A 9a Cryo-Em Map: Classic Pre State 2	18.3	18.3	56%	12	100%	3J0O_8

Alignments

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Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Post- Translocation State (post1, 50s Subunit)

Sequence ID: pdb|3J5A|ALength: 2903Number of Matches: 4

Related Information

Range 1: 961 to 976GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
32.2 bits(16)	8e-04()	16/16(100%)	0/16(0%)	Plus/Plus

Query  1    CGTCCGTCGTGAAGAG  16
            ||||||||||||||||
Sbjct  961  CGTCCGTCGTGAAGAG  976

Range 2: 2591 to 2598GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #2
Score	Expect	Identities	Gaps	Strand	Frame
16.4 bits(8)	47()	8/8(100%)	0/8(0%)	Plus/Plus

Query  5     CGTCGTGA  12
             ||||||||
Sbjct  2591  CGTCGTGA  2598

Range 3: 839 to 845GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #3
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  7    TCGTGAA  13
            |||||||
Sbjct  839  TCGTGAA  845

Range 4: 2027 to 2033GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #4
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  9     GTGAAGA  15
             |||||||
Sbjct  2027  GTGAAGA  2033

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Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5b, 50s Subunit)

Sequence ID: pdb|3J58|ALength: 2903Number of Matches: 4

Related Information

Range 1: 961 to 976GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
32.2 bits(16)	8e-04()	16/16(100%)	0/16(0%)	Plus/Plus

Query  1    CGTCCGTCGTGAAGAG  16
            ||||||||||||||||
Sbjct  961  CGTCCGTCGTGAAGAG  976

Range 2: 2591 to 2598GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #2
Score	Expect	Identities	Gaps	Strand	Frame
16.4 bits(8)	47()	8/8(100%)	0/8(0%)	Plus/Plus

Query  5     CGTCGTGA  12
             ||||||||
Sbjct  2591  CGTCGTGA  2598

Range 3: 839 to 845GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #3
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  7    TCGTGAA  13
            |||||||
Sbjct  839  TCGTGAA  845

Range 4: 2027 to 2033GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #4
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  9     GTGAAGA  15
             |||||||
Sbjct  2027  GTGAAGA  2033

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Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre5a, 50s Subunit)

Sequence ID: pdb|3J56|ALength: 2903Number of Matches: 4

Related Information

Range 1: 961 to 976GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
32.2 bits(16)	8e-04()	16/16(100%)	0/16(0%)	Plus/Plus

Query  1    CGTCCGTCGTGAAGAG  16
            ||||||||||||||||
Sbjct  961  CGTCCGTCGTGAAGAG  976

Range 2: 2591 to 2598GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #2
Score	Expect	Identities	Gaps	Strand	Frame
16.4 bits(8)	47()	8/8(100%)	0/8(0%)	Plus/Plus

Query  5     CGTCGTGA  12
             ||||||||
Sbjct  2591  CGTCGTGA  2598

Range 3: 839 to 845GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #3
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  7    TCGTGAA  13
            |||||||
Sbjct  839  TCGTGAA  845

Range 4: 2027 to 2033GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #4
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  9     GTGAAGA  15
             |||||||
Sbjct  2027  GTGAAGA  2033

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Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Hybrid Pre- Translocation State (pre4, 50s Subunit)

Sequence ID: pdb|3J54|ALength: 2903Number of Matches: 4

Related Information

Range 1: 961 to 976GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
32.2 bits(16)	8e-04()	16/16(100%)	0/16(0%)	Plus/Plus

Query  1    CGTCCGTCGTGAAGAG  16
            ||||||||||||||||
Sbjct  961  CGTCCGTCGTGAAGAG  976

Range 2: 2591 to 2598GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #2
Score	Expect	Identities	Gaps	Strand	Frame
16.4 bits(8)	47()	8/8(100%)	0/8(0%)	Plus/Plus

Query  5     CGTCGTGA  12
             ||||||||
Sbjct  2591  CGTCGTGA  2598

Range 3: 839 to 845GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #3
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  7    TCGTGAA  13
            |||||||
Sbjct  839  TCGTGAA  845

Range 4: 2027 to 2033GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #4
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  9     GTGAAGA  15
             |||||||
Sbjct  2027  GTGAAGA  2033

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Chain A, E. Coli 70s-fmetval-trnaval-trnafmet Complex In Classic Pre- Translocation State (pre1a, 50s Subunit)

Sequence ID: pdb|3J52|ALength: 2903Number of Matches: 4

Related Information

Range 1: 961 to 976GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
32.2 bits(16)	8e-04()	16/16(100%)	0/16(0%)	Plus/Plus

Query  1    CGTCCGTCGTGAAGAG  16
            ||||||||||||||||
Sbjct  961  CGTCCGTCGTGAAGAG  976

Range 2: 2591 to 2598GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #2
Score	Expect	Identities	Gaps	Strand	Frame
16.4 bits(8)	47()	8/8(100%)	0/8(0%)	Plus/Plus

Query  5     CGTCGTGA  12
             ||||||||
Sbjct  2591  CGTCGTGA  2598

Range 3: 839 to 845GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #3
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  7    TCGTGAA  13
            |||||||
Sbjct  839  TCGTGAA  845

Range 4: 2027 to 2033GenBank Graphics Next Match Previous Match First Match

Alignment statistics for match #4
Score	Expect	Identities	Gaps	Strand	Frame
14.4 bits(7)	186()	7/7(100%)	0/7(0%)	Plus/Plus

Query  9     GTGAAGA  15
             |||||||
Sbjct  2027  GTGAAGA  2033

Basic Local Alignment Search Tool

Nucleotide Sequence (16 letters)

Graphic Summary

Distribution of 45 Blast Hits on the Query Sequence [?]

Descriptions

Alignments