Search to RefSeqBP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Query= 20110601C-014252
(784 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001070445.1| hematopoietic cell signal transducer precurs... 49 6e-06
>ref|NP_001070445.1| hematopoietic cell signal transducer precursor [Bos taurus].
Length = 79
Score = 48.5 bits (114), Expect = 6e-06
Identities = 30/79 (37%), Positives = 31/79 (39%)
Frame = +2
Query: 98 MAPPGGIXXXXXXPVAAAQVTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRP 277
M PPG I PVA AQ+T R
Sbjct: 1 MVPPGNILFLLLLPVATAQMTPGSCSGCGPLSLPLLAGLVAADAVVSLLIVVVVFVCARL 60
Query: 278 RSRPTQEDGKIYINMPGRG 334
RSRPTQED KIYINMPGRG
Sbjct: 61 RSRPTQEDDKIYINMPGRG 79
Database: RefSeq49_BP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 17,681,374
Number of sequences in database: 33,088
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 31,516,712
Number of extensions: 986381
Number of successful extensions: 2878
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2870
Number of HSP's successfully gapped: 1
Length of query: 261
Length of database: 17,681,374
Length adjustment: 100
Effective length of query: 161
Effective length of database: 14,372,574
Effective search space: 2313984414
Effective search space used: 2313984414
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)
Animal-Genome cDNA 20110601C-014252
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Query= 20110601C-014252
(784 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
***** No hits found ******
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 32,720,998
Number of extensions: 960452
Number of successful extensions: 2953
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2952
Number of HSP's successfully gapped: 0
Length of query: 261
Length of database: 18,874,504
Length adjustment: 101
Effective length of query: 160
Effective length of database: 15,507,568
Effective search space: 2481210880
Effective search space used: 2481210880
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Query= 20110601C-014252
(784 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_999307.1| hematopoietic cell signal transducer precursor ... 62 5e-10
>ref|NP_999307.1| hematopoietic cell signal transducer precursor [Sus scrofa].
Length = 79
Score = 61.6 bits (148), Expect = 5e-10
Identities = 36/79 (45%), Positives = 36/79 (45%)
Frame = +2
Query: 98 MAPPGGIXXXXXXPVAAAQVTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRP 277
MAPPGGI PVAAAQVT RP
Sbjct: 1 MAPPGGILFLLLLPVAAAQVTSGSCSGCGPLSLPLLAGLVAADAVVSLLIVVGVFVCGRP 60
Query: 278 RSRPTQEDGKIYINMPGRG 334
RSRPTQEDGKIYINMPGRG
Sbjct: 61 RSRPTQEDGKIYINMPGRG 79
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 21,034,266
Number of extensions: 734797
Number of successful extensions: 1944
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1939
Number of HSP's successfully gapped: 1
Length of query: 261
Length of database: 11,343,932
Length adjustment: 97
Effective length of query: 164
Effective length of database: 8,928,923
Effective search space: 1464343372
Effective search space used: 1464343372
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Query= 20110601C-014252
(784 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
***** No hits found ******
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 26,546,485
Number of extensions: 759271
Number of successful extensions: 2252
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2250
Number of HSP's successfully gapped: 0
Length of query: 261
Length of database: 15,617,559
Length adjustment: 99
Effective length of query: 162
Effective length of database: 12,643,995
Effective search space: 2048327190
Effective search space used: 2048327190
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Query= 20110601C-014252
(784 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
***** No hits found ******
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 31,750,740
Number of extensions: 923930
Number of successful extensions: 2808
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2805
Number of HSP's successfully gapped: 0
Length of query: 261
Length of database: 18,297,164
Length adjustment: 100
Effective length of query: 161
Effective length of database: 15,000,764
Effective search space: 2415123004
Effective search space used: 2415123004
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Query= 20110601C-014252
(784 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Sscrofa_Chr06 301 3e-79
>Sscrofa_Chr06
|| Length = 157765593
Score = 301 bits (152), Expect = 3e-79
Identities = 158/160 (98%)
Strand = Plus / Plus
Query: 295 agaagacggcaaaatctacatcaacatgccgggcaggggctgaccccgctgtaagccgtt 354
|||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 40711563 agaagacggcaaaatctacatcaacatgccgggcaggggctgaccccgctataagccgtt 40711622
Query: 355 acctgcaacctttgactcctgaccctcccatcccagattgtgtgtggcggcacaggaaac 414
|||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 40711623 acctgcaacctttgactcctgaccctcccatccctgattgtgtgtggcggcacaggaaac 40711682
Query: 415 tggcccctcttggggattggaataaagtctttgaaatacc 454
||||||||||||||||||||||||||||||||||||||||
Sbjct: 40711683 tggcccctcttggggattggaataaagtctttgaaatacc 40711722
Score = 268 bits (135), Expect = 4e-69
Identities = 138/139 (99%)
Strand = Plus / Plus
Query: 2 accagcagagtgacatccgctattgctgcctctctactccccccactgttcctcaggact 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 40710211 accagcagagtgacatccgctattgctgcctctctactccccccactgttcctcaggact 40710270
Query: 62 tctgtggaccagaacccttcccgcccccagtccaccatggcccctccaggcggcatcctg 121
|||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 40710271 tctgtggaccagaacccttcccgcccccagcccaccatggcccctccaggcggcatcctg 40710330
Query: 122 ttcctgcttttgctcccag 140
|||||||||||||||||||
Sbjct: 40710331 ttcctgcttttgctcccag 40710349
Score = 262 bits (132), Expect = 3e-67
Identities = 135/136 (99%)
Strand = Plus / Plus
Query: 161 tcaggttcctgttccggatgtgggcccctctccctgccactcctagcaggcctcgtggcc 220
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 40711204 tcaggttcctgttccggatgtgggcccctctccctgccactcctagcaggcctcgtggcc 40711263
Query: 221 gctgatgcagttgtgtcactgttaatcgtggtgggggtatgtgtgtgcggacgcccacgc 280
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 40711264 gctgatgcagttgtgtcactgttaatcgtggtgggggtatttgtgtgcggacgcccacgc 40711323
Query: 281 agcaggcccacccaag 296
||||||||||||||||
Sbjct: 40711324 agcaggcccacccaag 40711339
Score = 58.0 bits (29), Expect = 8e-06
Identities = 29/29 (100%)
Strand = Plus / Plus
Query: 138 cagtggctgcagcgcaggtgacctcaggt 166
|||||||||||||||||||||||||||||
Sbjct: 40710728 cagtggctgcagcgcaggtgacctcaggt 40710756
Database: Sscrofa_10.2.fasta
Posted date: Nov 16, 2011 10:34 AM
Number of letters in database: 2,808,509,378
Number of sequences in database: 4582
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 16,249,147
Number of extensions: 355
Number of successful extensions: 355
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 355
Number of HSP's successfully gapped: 4
Length of query: 784
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 763
Effective length of database: 2,808,413,156
Effective search space: 2142819238028
Effective search space used: 2142819238028
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 17 (34.2 bits)
S2: 29 (58.0 bits)