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Alignment Text XML ASN.1 JSON Seq-align Hit Table(text) Hit Table(csv) Multiple-file XML2 Single-file XML2 Multiple-file JSON Single-file JSON SAM	Search Strategies ASN.1	PSSM to restart search PSSM	[?]

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 https://www.ncbi.nlm.nih.gov/books/NBK153387/

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 https://www.ncbi.nlm.nih.gov/data_specs/dtd/NCBI_BlastOutput.dtd
3). "ASN.1". Alignment written out in Abstract Syntax Notation 1.
4). "JSON Seq-align". Alignment written out in JSON.
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.
6). "XML2". New XML format described at ftp://ftp.ncbi.nlm.nih.gov/blast/documents/NEWXML/xml2.pdf.
7). "JSON". New JSON format described at ftp://ftp.ncbi.nlm.nih.gov/blast/documents/NEWXML/xml2.pdf.
8). "SAM". Sequence Alignment Map format.

XML2 and JSON can be downloaded either as one file per query (multiple-file) or one file for all queries (single-file). These formats are listed as Multiple-file XML2 (and JSON) or Single-file XML (and JSON).

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 https://www.ncbi.nlm.nih.gov/books/NBK1763/#CmdLineAppsManual.I455_BLAST_search_stra

Job title: E7Q0J:01335:11607

RID: VFRYJ95E016 (Expires on 09-13 21:23 pm)

Query ID: lcl|Query_85713; lcl|Query_85713
Description: E7Q0J:01335:11607
Molecule type: nucleic acid
Query Length: 176


Database Name: nr
Description: Nucleotide collection (nt) See details
Program: BLASTN 2.7.0+ Citation

Reference

Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000), "A greedy algorithm for aligning DNA sequences", J Comput Biol 2000; 7(1-2):203-14.

Reference - database indexing

Aleksandr Morgulis, George Coulouris, Yan Raytselis, Thomas L. Madden, Richa Agarwala, Alejandro A. Schäffer (2008), "Database Indexing for Production MegaBLAST Searches", Bioinformatics 24:1757-1764.

Other reports: Search Summary [Distance tree of results]

Search Parameters
Search parameter name	Search parameter value
Program	blastn
Word size	28
Expect value	10
Hitlist size	100
Match/Mismatch scores	1,-2
Gapcosts	0,2.5
Low Complexity Filter	Yes
Filter string	L;m;
Genetic Code	1

Database
Database parameter name	Database parameter value
Posted date	Sep 10, 2017 7:25 AM
Number of letters	156,980,978,343
Number of sequences	44,402,363
Entrez query	none

Karlin-Altschul statistics
Params	Ungapped	Gapped
Lambda	1.33271	1.28
K	0.620991	0.46
H	1.12409	0.85

Results Statistics
Results Statistics parameter name	Results Statistics parameter value
Length adjustment	33
Effective length of query	143
Effective length of database	155515700364
Effective search space	22238745152052
Effective search space used	22238745152052

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 ref\|XR_001732032.1\|	PREDICTED: Homo sapiens uncharacterized LOC105369568 (LOC105369568), transcript variant X1, ncRNA	311	311	100%	4e-81	98%	XR_001732032.1
2Select seq ref\|XR_001748441.1\|	PREDICTED: Homo sapiens uncharacterized LOC105369568 (LOC105369568), transcript variant X1, ncRNA	311	311	100%	4e-81	98%	XR_001748441.1
3Select seq emb\|CU041293.2\|	Human DNA sequence from clone XX-DSH1_29P12, complete sequence	311	311	100%	4e-81	98%	CU041293.2
4Select seq dbj\|AP001995.4\|	Homo sapiens genomic DNA, chromosome 11q, clone:RP11-264E20, complete sequence	311	311	100%	4e-81	98%	AP001995.4
5Select seq ref\|XR_983965.1\|	PREDICTED: Macaca nemestrina uncharacterized LOC105476221 (LOC105476221), transcript variant X2, misc_RNA	204	204	98%	7e-49	88%	XR_983965.1

Alignments

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PREDICTED: Homo sapiens uncharacterized LOC105369568 (LOC105369568), transcript variant X1, ncRNA

Sequence ID: XR_001732032.1Length: 1954Number of Matches: 1

Related Information

Range 1: 1165 to 1343GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
311 bits(168)	4e-81()	176/179(98%)	3/179(1%)	Plus/Minus

Query  1     CGGTATT-AAAA-CCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCAGG  58
             ||||||| |||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  1343  CGGTATTAAAAACCCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCAGG  1284

Query  59    G-AAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  117
             | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  1283  GGAAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  1224

Query  118   ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  176
             |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  1223  ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  1165

Download GenBank Graphics Next Previous Descriptions

PREDICTED: Homo sapiens uncharacterized LOC105369568 (LOC105369568), transcript variant X1, ncRNA

Sequence ID: XR_001748441.1Length: 1954Number of Matches: 1

Related Information

Range 1: 1165 to 1343GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
311 bits(168)	4e-81()	176/179(98%)	3/179(1%)	Plus/Minus

Query  1     CGGTATT-AAAA-CCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCAGG  58
             ||||||| |||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  1343  CGGTATTAAAAACCCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCAGG  1284

Query  59    G-AAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  117
             | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  1283  GGAAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  1224

Query  118   ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  176
             |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  1223  ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  1165

Download GenBank Graphics Next Previous Descriptions

Human DNA sequence from clone XX-DSH1_29P12, complete sequence

Sequence ID: CU041293.2Length: 71652Number of Matches: 1

Related Information

Map Viewer-aligned genomic context

Range 1: 49189 to 49367GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
311 bits(168)	4e-81()	176/179(98%)	3/179(1%)	Plus/Plus

Query  1      CGGTATT-AAAA-CCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCA-G  57
              ||||||| |||| ||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct  49189  CGGTATTAAAAACCCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCAGG  49248

Query  58     GGAAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  117
              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  49249  GGAAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  49308

Query  118    ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  176
              |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  49309  ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  49367

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Homo sapiens genomic DNA, chromosome 11q, clone:RP11-264E20, complete sequence

Sequence ID: AP001995.4Length: 96071Number of Matches: 1

Related Information

Map Viewer-aligned genomic context

Range 1: 51549 to 51727GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
311 bits(168)	4e-81()	176/179(98%)	3/179(1%)	Plus/Plus

Query  1      CGGTATT-AAAA-CCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCA-G  57
              ||||||| |||| ||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct  51549  CGGTATTAAAAACCCATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCAGG  51608

Query  58     GGAAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  117
              ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  51609  GGAAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGG  51668

Query  118    ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  176
              |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct  51669  ATGGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  51727

Download GenBank Graphics Next Previous Descriptions

PREDICTED: Macaca nemestrina uncharacterized LOC105476221 (LOC105476221), transcript variant X2, misc_RNA

Sequence ID: XR_983965.1Length: 1483Number of Matches: 1

Related Information

Gene-associated gene details

Range 1: 1152 to 1324GenBank Graphics Next Match Previous Match

Alignment statistics for match #1
Score	Expect	Identities	Gaps	Strand	Frame
204 bits(110)	7e-49()	156/177(88%)	7/177(3%)	Plus/Minus

Query  3     GTATT-AAAACC-ATGGTTTTTAGGATCCTTAGCCCTGCCAATGGTTATCTGAGCAGG-G  59
             ||||| ||||||  ||| || ||||||||||||||||||  |  |||||||||||||| |
Sbjct  1324  GTATTGAAAACCTGTGGATTGTAGGATCCTTAGCCCTGCTGACTGTTATCTGAGCAGGAG  1265

Query  60    AAGCATATTTGTTTTAAGCAACTGGGAGTGTAGAAGACATGGGTGCTTCCTTCCTGGGAT  119
             ||||||||||||||||||||   |||| ||||||||||||||||||||||||||||||||
Sbjct  1264  AAGCATATTTGTTTTAAGCAGTCGGGACTGTAGAAGACATGGGTGCTTCCTTCCTGGGAT  1205

Query  120   GGCCAGGCAACAAGAGGCATGTAAGAAGATTTCCAAGGAAGAGAAGGCAAGCCATGG  176
             || ||| |||||||| ||||||||||   ||||||||| ||||||||||||||||||
Sbjct  1204  GGTCAGTCAACAAGATGCATGTAAGA---TTTCCAAGG-AGAGAAGGCAAGCCATGG  1152

Job title: E7Q0J:01335:11607

Graphic Summary

Distribution of the top 5 Blast Hits on 5 subject sequences [?]

Descriptions

Alignments