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-009001
(1019 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
***** No hits found ******
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: 30,794,198
Number of extensions: 935915
Number of successful extensions: 4663
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4582
Number of HSP's successfully gapped: 0
Length of query: 339
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 236
Effective length of database: 14,273,310
Effective search space: 3368501160
Effective search space used: 3368501160
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 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-009001
(1019 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: 31,478,407
Number of extensions: 833304
Number of successful extensions: 4775
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4686
Number of HSP's successfully gapped: 0
Length of query: 339
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 236
Effective length of database: 15,440,896
Effective search space: 3644051456
Effective search space used: 3644051456
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-009001
(1019 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|XP_003354605.1| PREDICTED: LOW QUALITY PROTEIN: proline-rich... 233 1e-61
>ref|XP_003354605.1| PREDICTED: LOW QUALITY PROTEIN: proline-rich transmembrane protein
2-like [Sus scrofa].
Length = 339
Score = 233 bits (594), Expect = 1e-61
Identities = 136/250 (54%), Positives = 138/250 (55%)
Frame = +2
Query: 269 MAASSPEVSEMKXXXXXXXXXXXXXXHSEDGTGPPQAPAGVPDEPETLPPGPDITGAPVD 448
MAASSPEVSEMK HSEDGTGPPQAPAGVPDEPETLPPGPDITGAPVD
Sbjct: 1 MAASSPEVSEMKGAEEGAQTQGEGPGHSEDGTGPPQAPAGVPDEPETLPPGPDITGAPVD 60
Query: 449 SXXXXXXXXXXXXXXXXXXXXXXXXDLSANPGGESKANSSPEETCQELASKPEVSKEATA 628
S DLSANPGGESKANSSPEETCQELASKPEVSKEATA
Sbjct: 61 SEPEAGLAPETTETPTGAPEAAQATDLSANPGGESKANSSPEETCQELASKPEVSKEATA 120
Query: 629 DQGTHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLXXXXXXXXXXXXXVLT 808
DQGTH L VLT
Sbjct: 121 DQGTHLEPAAPLEPASEPAPQLDPQSVPQPDPQPASQPTSTPVLQPEPPTQEDPTPEVLT 180
Query: 809 ESGGEKQENGAVVPLQAGDGDGEEGXXXXXXXXXXXXXXXXNGAPPRVLQQLVEEDRVGR 988
ESGGEKQENGAVVPLQAGDGDGE+G NGAPPRVLQQL ED +
Sbjct: 181 ESGGEKQENGAVVPLQAGDGDGEKGQPPHPHSXPSTKTPPANGAPPRVLQQLGGEDXSRK 240
Query: 989 AHGGRPGSPR 1018
AHG PGS R
Sbjct: 241 AHGAGPGSSR 250
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: 21,104,147
Number of extensions: 781698
Number of successful extensions: 3063
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3023
Number of HSP's successfully gapped: 2
Length of query: 339
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 239
Effective length of database: 8,854,232
Effective search space: 2116161448
Effective search space used: 2116161448
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 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-009001
(1019 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001096033.1| proline-rich transmembrane protein 2 [Mus mu... 160 2e-39
>ref|NP_001096033.1| proline-rich transmembrane protein 2 [Mus musculus].
Length = 346
Score = 160 bits (404), Expect = 2e-39
Identities = 106/252 (42%), Positives = 119/252 (47%), Gaps = 2/252 (0%)
Frame = +2
Query: 269 MAASSPEVSEMKXXXXXXXXXXXXXXHSEDGTGPPQAPAGVPDEPETLPPGPDITGAPVD 448
MAASS +VSEMK HSE+G GP Q A +PD+PE L PGP IT APVD
Sbjct: 1 MAASSSQVSEMKGVEDSSKTQTEGPRHSEEGLGPVQVVAEIPDQPEALQPGPGITAAPVD 60
Query: 449 SXXXXXXXXXXXXXXXXXXXXXXXXDLSANPGGESKANSSPE--ETCQELASKPEVSKEA 622
S DLS NP SKA+ SP E QE ASKP+V++E
Sbjct: 61 SGPKAELAPETTETPVETPETVQATDLSLNPEEGSKASPSPSPSEARQEPASKPDVNRET 120
Query: 623 TADQGTHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLXXXXXXXXXXXXXV 802
A++G+ L V
Sbjct: 121 AAEEGSEPQSTAPPEPTSEPAFQINTQSDPQPTSQPPPKPP----LQAEPPTQEDPTTEV 176
Query: 803 LTESGGEKQENGAVVPLQAGDGDGEEGXXXXXXXXXXXXXXXXNGAPPRVLQQLVEEDRV 982
LTES GEKQENGAVVPLQAGDG EEG NGAPPRVLQ+LVEEDR+
Sbjct: 177 LTESTGEKQENGAVVPLQAGDG--EEGPAPQPHSPPSTKTPPANGAPPRVLQKLVEEDRI 234
Query: 983 GRAHGGRPGSPR 1018
GRAHGG PGSPR
Sbjct: 235 GRAHGGHPGSPR 246
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: 25,531,052
Number of extensions: 651908
Number of successful extensions: 3497
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3407
Number of HSP's successfully gapped: 2
Length of query: 339
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 237
Effective length of database: 12,553,887
Effective search space: 2975271219
Effective search space used: 2975271219
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 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-009001
(1019 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_660282.2| proline-rich transmembrane protein 2 [Homo sapi... 182 6e-46
>ref|NP_660282.2| proline-rich transmembrane protein 2 [Homo sapiens].
Length = 340
Score = 182 bits (461), Expect = 6e-46
Identities = 114/250 (45%), Positives = 123/250 (49%)
Frame = +2
Query: 269 MAASSPEVSEMKXXXXXXXXXXXXXXHSEDGTGPPQAPAGVPDEPETLPPGPDITGAPVD 448
MAASS E+SEMK HSE TGPPQ AGVPD+PE PGP+ T APVD
Sbjct: 1 MAASSSEISEMKGVEESPKVPGEGPGHSEAETGPPQVLAGVPDQPEAPQPGPNTTAAPVD 60
Query: 449 SXXXXXXXXXXXXXXXXXXXXXXXXDLSANPGGESKANSSPEETCQELASKPEVSKEATA 628
S DLS +PGGESKAN SPE+ CQE SKPEVSKEATA
Sbjct: 61 SGPKAGLAPETTETPAGASETAQATDLSLSPGGESKANCSPEDPCQETVSKPEVSKEATA 120
Query: 629 DQGTHXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXLXXXXXXXXXXXXXVLT 808
DQG+ L +L+
Sbjct: 121 DQGSR--------LESAAPPEPAPEPAPQPDPRPDSQPTPKPALQPELPTQEDPTPEILS 172
Query: 809 ESGGEKQENGAVVPLQAGDGDGEEGXXXXXXXXXXXXXXXXNGAPPRVLQQLVEEDRVGR 988
ES GEKQENGAVVPLQA GDGEEG NGAPPRVLQQLVEEDR+ R
Sbjct: 173 ESVGEKQENGAVVPLQA--GDGEEGPAPEPHSPPSKKSPPANGAPPRVLQQLVEEDRMRR 230
Query: 989 AHGGRPGSPR 1018
AH G PGSPR
Sbjct: 231 AHSGHPGSPR 240
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: 30,653,657
Number of extensions: 796537
Number of successful extensions: 4584
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4471
Number of HSP's successfully gapped: 2
Length of query: 339
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 236
Effective length of database: 14,901,872
Effective search space: 3516841792
Effective search space used: 3516841792
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 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-009001
(1019 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_Chr03 926 0.0
>Sscrofa_Chr03
|| Length = 144787322
Score = 926 bits (467), Expect = 0.0
Identities = 467/467 (100%)
Strand = Plus / Minus
Query: 199 aggatttgctgctgtctctgctgctccatccttcttcccacagcggccctctcctctctc 258
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541808 aggatttgctgctgtctctgctgctccatccttcttcccacagcggccctctcctctctc 18541749
Query: 259 ctagctcaagatggcagccagcagcccggaggtctctgagatgaaaggggcagaggaggg 318
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541748 ctagctcaagatggcagccagcagcccggaggtctctgagatgaaaggggcagaggaggg 18541689
Query: 319 tgcccagacccagggagaagggcccggccattctgaagatggaaccggccctccccaggc 378
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541688 tgcccagacccagggagaagggcccggccattctgaagatggaaccggccctccccaggc 18541629
Query: 379 cccagctggggtcccagatgagccagagaccctgccgccaggcccagacatcactggggc 438
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541628 cccagctggggtcccagatgagccagagaccctgccgccaggcccagacatcactggggc 18541569
Query: 439 ccctgtggactcagagcccgaggctgggctggctccagaaaccacagagaccccaactgg 498
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541568 ccctgtggactcagagcccgaggctgggctggctccagaaaccacagagaccccaactgg 18541509
Query: 499 ggccccagaagcagctcaggccacagacctcagcgccaacccaggaggggaatcaaaggc 558
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541508 ggccccagaagcagctcaggccacagacctcagcgccaacccaggaggggaatcaaaggc 18541449
Query: 559 caactccagccccgaagaaacatgccaagagctagcatccaaaccagaagtgagcaaaga 618
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541448 caactccagccccgaagaaacatgccaagagctagcatccaaaccagaagtgagcaaaga 18541389
Query: 619 ggccactgcagaccaggggacccacctggaacctgcagccccactcg 665
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541388 ggccactgcagaccaggggacccacctggaacctgcagccccactcg 18541342
Score = 285 bits (144), Expect = 2e-74
Identities = 232/262 (88%), Gaps = 3/262 (1%)
Strand = Plus / Minus
Query: 759 ttcagccagagccaccgacccaggaggaccccacccctgaggtcctgacggagagtnnnn 818
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541248 ttcagccagagccaccgacccaggaggaccccacccctgaggtcctgacggagagtgggg 18541189
Query: 819 nnnaaaagcaggaaaat-ggggctgtggttcccctgcaggctggggatggggatggggaa 877
|||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18541188 gggaaaagcaggaaaatgggggctgtggttcccctgcaggctggggatggggatggggaa 18541129
Query: 878 gagggtccagccccccatcctcactcaccaccctcaacgaaaannnnnnnagccaatggg 937
|||||| ||||||||||||||||| ||||||||||||||| ||||||||||
Sbjct: 18541128 aagggtcagcccccccatcctcactca-caccctcaacgaaaacccccccagccaatggg 18541070
Query: 938 gctccaccccgcgtgctacagcagctggtggaggaggatcgagtaggaagggctcatggg 997
|||||||||||||||||||||||||||| || || |||| |||| ||| ||||||||||
Sbjct: 18541069 gctccaccccgcgtgctacagcagctggggggagaagatccagta-gaaaggctcatggg 18541011
Query: 998 ggccgcccaggatctcctcggg 1019
| | ||||||||||| ||||||
Sbjct: 18541010 gccggcccaggatcttctcggg 18540989
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: 22,223,870
Number of extensions: 325
Number of successful extensions: 325
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 321
Number of HSP's successfully gapped: 2
Length of query: 1019
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 998
Effective length of database: 2,808,413,156
Effective search space: 2802796329688
Effective search space used: 2802796329688
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)