BLASTN 2.4.0+
Reference:
Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database
search programs", Nucleic Acids Res. 25:3389-3402.
Database: rna.fa
176,426 sequences; 587,117,901 total letters
Query= ATTCCACTTTGCGTTCAAGG (evalue = 10)
Length=20
Score E
Sequences producing significant alignments: (Bits) Value
gi|240849334|ref|NM_003380.3| Homo sapiens vimentin (VIM), mRNA 40.1 0.002
gi|578818564|ref|XM_006717500.1| PREDICTED: Homo sapiens viment... 40.1 0.002
gi|1034675435|ref|XM_011531199.2| PREDICTED: Homo sapiens trans... 28.2 7.3
gi|133778990|ref|NM_003492.2| Homo sapiens transmembrane protei... 28.2 7.3
gi|361050335|ref|NM_001254728.1| Homo sapiens adaptor related p... 28.2 7.3
gi|1034586029|ref|XM_011536372.2| PREDICTED: Homo sapiens adapt... 28.2 7.3
gi|1034586028|ref|XM_005267293.4| PREDICTED: Homo sapiens adapt... 28.2 7.3
> gi|240849334|ref|NM_003380.3| Homo sapiens vimentin (VIM), mRNA
Length=2151
Score = 40.1 bits (20), Expect = 0.002
Identities = 20/20 (100%), Gaps = 0/20 (0%)
Strand=Plus/Minus
Query 1 ATTCCACTTTGCGTTCAAGG 20
||||||||||||||||||||
Sbjct 1089 ATTCCACTTTGCGTTCAAGG 1070
> gi|578818564|ref|XM_006717500.1| PREDICTED: Homo sapiens vimentin
(VIM), transcript variant X1, mRNA
Length=3211
Score = 40.1 bits (20), Expect = 0.002
Identities = 20/20 (100%), Gaps = 0/20 (0%)
Strand=Plus/Minus
Query 1 ATTCCACTTTGCGTTCAAGG 20
||||||||||||||||||||
Sbjct 2164 ATTCCACTTTGCGTTCAAGG 2145
> gi|1034675435|ref|XM_011531199.2| PREDICTED: Homo sapiens transmembrane
protein 187 (TMEM187), transcript variant X1, mRNA
Length=1681
Score = 28.2 bits (14), Expect = 7.3
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 2 TTCCACTTTGCGTT 15
||||||||||||||
Sbjct 1258 TTCCACTTTGCGTT 1271
> gi|133778990|ref|NM_003492.2| Homo sapiens transmembrane protein
187 (TMEM187), mRNA
Length=1682
Score = 28.2 bits (14), Expect = 7.3
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 2 TTCCACTTTGCGTT 15
||||||||||||||
Sbjct 1243 TTCCACTTTGCGTT 1256
> gi|361050335|ref|NM_001254728.1| Homo sapiens adaptor related
protein complex 4 sigma 1 subunit (AP4S1), transcript variant
5, mRNA
Length=4617
Score = 28.2 bits (14), Expect = 7.3
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 1 ATTCCACTTTGCGT 14
||||||||||||||
Sbjct 421 ATTCCACTTTGCGT 434
> gi|1034586029|ref|XM_011536372.2| PREDICTED: Homo sapiens adaptor
related protein complex 4 sigma 1 subunit (AP4S1), transcript
variant X3, mRNA
Length=3868
Score = 28.2 bits (14), Expect = 7.3
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 1 ATTCCACTTTGCGT 14
||||||||||||||
Sbjct 471 ATTCCACTTTGCGT 484
> gi|1034586028|ref|XM_005267293.4| PREDICTED: Homo sapiens adaptor
related protein complex 4 sigma 1 subunit (AP4S1), transcript
variant X2, mRNA
Length=3904
Score = 28.2 bits (14), Expect = 7.3
Identities = 14/14 (100%), Gaps = 0/14 (0%)
Strand=Plus/Plus
Query 1 ATTCCACTTTGCGT 14
||||||||||||||
Sbjct 471 ATTCCACTTTGCGT 484
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Effective search space used: 2337180340
Database: rna.fa
Posted date: Jan 6, 2017 3:58 PM
Number of letters in database: 587,117,901
Number of sequences in database: 176,426
Matrix: blastn matrix 1 -3
Gap Penalties: Existence: 5, Extension: 2