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= GACGACATGGATAAGAATGAACTCGAGTTCATTCTTATCCATGTCGTCTTTTTT (evalue = 10)
Length=54
Score E
Sequences producing significant alignments: (Bits) Value
gi|1034629736|ref|XR_937944.2| PREDICTED: Homo sapiens eukaryot... 42.1 0.005
gi|83367070|ref|NM_003753.3| Homo sapiens eukaryotic translatio... 42.1 0.005
gi|578814103|ref|XM_005250267.2| PREDICTED: Homo sapiens HMG-bo... 34.2 1.1
gi|578814102|ref|XM_005250266.2| PREDICTED: Homo sapiens HMG-bo... 34.2 1.1
gi|293336421|ref|NM_006557.6| Homo sapiens doublesex and mab-3 ... 32.2 4.3
> gi|1034629736|ref|XR_937944.2| PREDICTED: Homo sapiens eukaryotic
translation initiation factor 3 subunit D (EIF3D), transcript
variant X1, misc_RNA
Length=2057
Score = 42.1 bits (21), Expect = 0.005
Identities = 21/21 (100%), Gaps = 0/21 (0%)
Strand=Plus/Plus
Query 1 GACGACATGGATAAGAATGAA 21
|||||||||||||||||||||
Sbjct 1464 GACGACATGGATAAGAATGAA 1484
Score = 42.1 bits (21), Expect = 0.005
Identities = 21/21 (100%), Gaps = 0/21 (0%)
Strand=Plus/Minus
Query 28 TTCATTCTTATCCATGTCGTC 48
|||||||||||||||||||||
Sbjct 1484 TTCATTCTTATCCATGTCGTC 1464
> gi|83367070|ref|NM_003753.3| Homo sapiens eukaryotic translation
initiation factor 3 subunit D (EIF3D), mRNA
Length=1949
Score = 42.1 bits (21), Expect = 0.005
Identities = 21/21 (100%), Gaps = 0/21 (0%)
Strand=Plus/Plus
Query 1 GACGACATGGATAAGAATGAA 21
|||||||||||||||||||||
Sbjct 1201 GACGACATGGATAAGAATGAA 1221
Score = 42.1 bits (21), Expect = 0.005
Identities = 21/21 (100%), Gaps = 0/21 (0%)
Strand=Plus/Minus
Query 28 TTCATTCTTATCCATGTCGTC 48
|||||||||||||||||||||
Sbjct 1221 TTCATTCTTATCCATGTCGTC 1201
> gi|578814103|ref|XM_005250267.2| PREDICTED: Homo sapiens HMG-box
transcription factor 1 (HBP1), transcript variant X3, mRNA
Length=3004
Score = 34.2 bits (17), Expect = 1.1
Identities = 17/17 (100%), Gaps = 0/17 (0%)
Strand=Plus/Plus
Query 21 ACTCGAGTTCATTCTTA 37
|||||||||||||||||
Sbjct 295 ACTCGAGTTCATTCTTA 311
Score = 34.2 bits (17), Expect = 1.1
Identities = 17/17 (100%), Gaps = 0/17 (0%)
Strand=Plus/Minus
Query 12 TAAGAATGAACTCGAGT 28
|||||||||||||||||
Sbjct 311 TAAGAATGAACTCGAGT 295
> gi|578814102|ref|XM_005250266.2| PREDICTED: Homo sapiens HMG-box
transcription factor 1 (HBP1), transcript variant X1, mRNA
Length=3303
Score = 34.2 bits (17), Expect = 1.1
Identities = 17/17 (100%), Gaps = 0/17 (0%)
Strand=Plus/Plus
Query 21 ACTCGAGTTCATTCTTA 37
|||||||||||||||||
Sbjct 296 ACTCGAGTTCATTCTTA 312
Score = 34.2 bits (17), Expect = 1.1
Identities = 17/17 (100%), Gaps = 0/17 (0%)
Strand=Plus/Minus
Query 12 TAAGAATGAACTCGAGT 28
|||||||||||||||||
Sbjct 312 TAAGAATGAACTCGAGT 296
> gi|293336421|ref|NM_006557.6| Homo sapiens doublesex and mab-3
related transcription factor 2 (DMRT2), transcript variant
1, mRNA
Length=2944
Score = 32.2 bits (16), Expect = 4.3
Identities = 19/20 (95%), Gaps = 0/20 (0%)
Strand=Plus/Minus
Query 35 TTATCCATGTCGTCTTTTTT 54
||||||||||| ||||||||
Sbjct 1224 TTATCCATGTCATCTTTTTT 1205
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Effective search space used: 21612390383
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