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-010044
(851 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_001073254.1| nuclear transcription factor Y subunit beta ... 407 e-114
Alignment gi|XP_002690356.1| PREDICTED: nuclear transcription factor-Y be... 401 e-112
Alignment gi|XP_002705271.1| PREDICTED: nuclear transcription factor-Y be... 401 e-112
Alignment gi|XP_001790643.1| PREDICTED: nuclear transcription factor Y, b... 397 e-111
Alignment gi|XP_001249731.2| PREDICTED: nuclear transcription factor Y, b... 284 6e-77
Alignment gi|NP_001029562.1| DNA polymerase epsilon subunit 3 [Bos taurus]. 73 3e-13
Alignment gi|NP_001039984.1| protein Dr1 [Bos taurus]. 72 8e-13
>ref|NP_001073254.1| nuclear transcription factor Y subunit beta [Bos taurus].
Length = 207
Score = 407 bits (1046), Expect = e-114
Identities = 204/207 (98%), Positives = 205/207 (99%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELT+EAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTDEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQIQFS 838
ADGQQQNVMVYTTSYQQISGV QIQFS
Sbjct: 181 ADGQQQNVMVYTTSYQQISGVQQIQFS 207
>ref|XP_002690356.1| PREDICTED: nuclear transcription factor-Y beta-like [Bos taurus].
Length = 209
Score = 401 bits (1031), Expect = e-112
Identities = 201/204 (98%), Positives = 202/204 (99%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELT+EAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTDEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQI 829
ADGQQQNVMVYTTSYQQISGV QI
Sbjct: 181 ADGQQQNVMVYTTSYQQISGVQQI 204
>ref|XP_002705271.1| PREDICTED: nuclear transcription factor-Y beta-like [Bos taurus].
Length = 209
Score = 401 bits (1031), Expect = e-112
Identities = 201/204 (98%), Positives = 202/204 (99%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELT+EAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTDEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQI 829
ADGQQQNVMVYTTSYQQISGV QI
Sbjct: 181 ADGQQQNVMVYTTSYQQISGVQQI 204
>ref|XP_001790643.1| PREDICTED: nuclear transcription factor Y, beta-like, partial [Bos
taurus].
Length = 207
Score = 397 bits (1021), Expect = e-111
Identities = 199/202 (98%), Positives = 200/202 (99%)
Frame = +2
Query: 224 MDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA 403
MDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA
Sbjct: 1 MDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA 60
Query: 404 NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLFAM 583
NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LFAM
Sbjct: 61 NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAM 120
Query: 584 STLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLITAD 763
STLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELT+EAFTNQLPAGLITAD
Sbjct: 121 STLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTDEAFTNQLPAGLITAD 180
Query: 764 GQQQNVMVYTTSYQQISGVPQI 829
GQQQNVMVYTTSYQQISGV QI
Sbjct: 181 GQQQNVMVYTTSYQQISGVQQI 202
>ref|XP_001249731.2| PREDICTED: nuclear transcription factor Y, beta-like, partial [Bos
taurus].
Length = 141
Score = 284 bits (727), Expect = 6e-77
Identities = 140/141 (99%), Positives = 140/141 (99%)
Frame = +2
Query: 224 MDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA 403
MDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA
Sbjct: 1 MDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA 60
Query: 404 NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLFAM 583
NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LFAM
Sbjct: 61 NVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILFAM 120
Query: 584 STLGFDSYVEPLKLYLQKFRE 646
STLGFDSYVEPLKLYLQKFRE
Sbjct: 121 STLGFDSYVEPLKLYLQKFRE 141
>ref|NP_001029562.1| DNA polymerase epsilon subunit 3 [Bos taurus].
Length = 147
Score = 73.2 bits (178), Expect = 3e-13
Identities = 37/97 (38%), Positives = 56/97 (57%)
Frame = +2
Query: 374 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 553
R +D+ LP A + RI+K A+P I+K+A+ + S F+ + TS A+ + KRKT
Sbjct: 4 RPEDLNLPNAVITRIIKEALPDGVNISKEARSAISRAASVFVLYATSCANNFAMKGKRKT 63
Query: 554 INGEDTLFAMSTLGFDSYVEPLKLYLQKFREAMKGEK 664
+N D L AM + F +V PLK L+ +R KG+K
Sbjct: 64 LNASDVLSAMEEMEFQRFVTPLKEALEAYRREQKGKK 100
>ref|NP_001039984.1| protein Dr1 [Bos taurus].
Length = 176
Score = 71.6 bits (174), Expect = 8e-13
Identities = 37/103 (35%), Positives = 65/103 (63%), Gaps = 1/103 (0%)
Frame = +2
Query: 359 SKESFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQ 538
+ S + D+ +P A + +++K +P ++A DA+E V C +EFI I+SEA+E C++
Sbjct: 2 ASSSGNDDDLTIPRAAINKMIKETLPNV-RVANDARELVVNCCTEFIHLISSEANEICNK 60
Query: 539 EKRKTINGEDTLFAMSTLGFDSYVEPLKLYLQKFRE-AMKGEK 664
++KTI+ E + A+ +LGF SY+ +K LQ+ + A+K K
Sbjct: 61 SEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRK 103
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: 27,845,971
Number of extensions: 653386
Number of successful extensions: 1993
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 1992
Number of HSP's successfully gapped: 7
Length of query: 283
Length of database: 17,681,374
Length adjustment: 101
Effective length of query: 182
Effective length of database: 14,339,486
Effective search space: 2609786452
Effective search space used: 2609786452
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-010044
(851 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_532675.2| PREDICTED: similar to nuclear transcription fac... 405 e-113
Alignment gi|XP_867097.1| PREDICTED: similar to nuclear transcription fac... 387 e-108
Alignment gi|XP_855374.1| PREDICTED: similar to DNA polymerase epsilon p1... 73 3e-13
Alignment gi|XP_537068.1| PREDICTED: similar to down-regulator of transcr... 72 8e-13
>ref|XP_532675.2| PREDICTED: similar to nuclear transcription factor-Y beta isoform 1
[Canis familiaris].
Length = 207
Score = 405 bits (1042), Expect = e-113
Identities = 203/207 (98%), Positives = 204/207 (98%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDS+TTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSATTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGG VTATDGLSEELTEEAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGTVTATDGLSEELTEEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQIQFS 838
ADGQQQNVMVYTTSYQQISGV QIQFS
Sbjct: 181 ADGQQQNVMVYTTSYQQISGVQQIQFS 207
>ref|XP_867097.1| PREDICTED: similar to nuclear transcription factor-Y beta isoform 2
[Canis familiaris].
Length = 233
Score = 387 bits (993), Expect = e-108
Identities = 201/233 (86%), Positives = 202/233 (86%), Gaps = 28/233 (12%)
Frame = +2
Query: 224 MDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA 403
MDGDS+TTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA
Sbjct: 1 MDGDSATTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLPIA 60
Query: 404 NVARIMKNAIPQTGK----------------------------IAKDAKECVQECVSEFI 499
NVARIMKNAIPQTGK IAKDAKECVQECVSEFI
Sbjct: 61 NVARIMKNAIPQTGKVMQRTHFTHLTLKPHTFKRRIAFIVKWQIAKDAKECVQECVSEFI 120
Query: 500 SFITSEASERCHQEKRKTINGEDTLFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGA 679
SFITSEASERCHQEKRKTINGED LFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGG
Sbjct: 121 SFITSEASERCHQEKRKTINGEDILFAMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGT 180
Query: 680 VTATDGLSEELTEEAFTNQLPAGLITADGQQQNVMVYTTSYQQISGVPQIQFS 838
VTATDGLSEELTEEAFTNQLPAGLITADGQQQNVMVYTTSYQQISGV QIQFS
Sbjct: 181 VTATDGLSEELTEEAFTNQLPAGLITADGQQQNVMVYTTSYQQISGVQQIQFS 233
>ref|XP_855374.1| PREDICTED: similar to DNA polymerase epsilon p17 subunit (DNA
polymerase epsilon subunit 3) (YB-like protein 1) (YBL1)
(NF-YB-like protein) [Canis familiaris].
Length = 283
Score = 73.2 bits (178), Expect = 3e-13
Identities = 37/97 (38%), Positives = 56/97 (57%)
Frame = +2
Query: 374 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 553
R +D+ LP A + RI+K A+P I+K+A+ + S F+ + TS A+ + KRKT
Sbjct: 140 RPEDLNLPNAVITRIIKEALPDGVNISKEARSAISRAASVFVLYATSCANNFAMKGKRKT 199
Query: 554 INGEDTLFAMSTLGFDSYVEPLKLYLQKFREAMKGEK 664
+N D L AM + F +V PLK L+ +R KG+K
Sbjct: 200 LNASDVLSAMEEMEFQRFVTPLKEALEAYRREQKGKK 236
>ref|XP_537068.1| PREDICTED: similar to down-regulator of transcription 1 [Canis
familiaris].
Length = 176
Score = 71.6 bits (174), Expect = 8e-13
Identities = 37/103 (35%), Positives = 65/103 (63%), Gaps = 1/103 (0%)
Frame = +2
Query: 359 SKESFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQ 538
+ S + D+ +P A + +++K +P ++A DA+E V C +EFI I+SEA+E C++
Sbjct: 2 ASSSGNDDDLTIPRAAINKMIKETLPNV-RVANDARELVVNCCTEFIHLISSEANEICNK 60
Query: 539 EKRKTINGEDTLFAMSTLGFDSYVEPLKLYLQKFRE-AMKGEK 664
++KTI+ E + A+ +LGF SY+ +K LQ+ + A+K K
Sbjct: 61 SEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRK 103
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: 29,010,938
Number of extensions: 668707
Number of successful extensions: 1983
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 1981
Number of HSP's successfully gapped: 4
Length of query: 283
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 181
Effective length of database: 15,474,232
Effective search space: 2800835992
Effective search space used: 2800835992
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-010044
(851 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_001138402.1| nuclear transcription factor Y subunit beta ... 408 e-114
Alignment gi|XP_003126691.1| PREDICTED: nuclear transcription factor Y su... 408 e-114
Alignment gi|XP_003122132.1| PREDICTED: DNA polymerase epsilon subunit 3-... 74 1e-13
Alignment gi|XP_001928514.1| PREDICTED: protein Dr1-like [Sus scrofa]. 71 7e-13
Alignment gi|XP_003361745.1| PREDICTED: protein Dr1-like [Sus scrofa]. 63 2e-10
>ref|NP_001138402.1| nuclear transcription factor Y subunit beta [Sus scrofa].
Length = 207
Score = 408 bits (1049), Expect = e-114
Identities = 205/207 (99%), Positives = 205/207 (99%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQIQFS 838
ADGQQQNVMVYTTSYQQISGV QIQFS
Sbjct: 181 ADGQQQNVMVYTTSYQQISGVQQIQFS 207
>ref|XP_003126691.1| PREDICTED: nuclear transcription factor Y subunit beta-like [Sus
scrofa].
Length = 207
Score = 408 bits (1049), Expect = e-114
Identities = 205/207 (99%), Positives = 205/207 (99%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQIQFS 838
ADGQQQNVMVYTTSYQQISGV QIQFS
Sbjct: 181 ADGQQQNVMVYTTSYQQISGVQQIQFS 207
>ref|XP_003122132.1| PREDICTED: DNA polymerase epsilon subunit 3-like [Sus scrofa].
Length = 147
Score = 73.9 bits (180), Expect = 1e-13
Identities = 37/97 (38%), Positives = 57/97 (58%)
Frame = +2
Query: 374 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 553
R +D+ LP A + RI+K A+P+ I+K+A+ + S F+ + TS A+ + KRKT
Sbjct: 4 RPEDLNLPNAVITRIIKEALPEGVNISKEARSAISRAASVFVLYATSCANNFAMKGKRKT 63
Query: 554 INGEDTLFAMSTLGFDSYVEPLKLYLQKFREAMKGEK 664
+N D L AM + F +V PLK L+ +R KG+K
Sbjct: 64 LNASDVLSAMEEMEFQRFVTPLKEALEAYRREQKGKK 100
>ref|XP_001928514.1| PREDICTED: protein Dr1-like [Sus scrofa].
Length = 176
Score = 71.2 bits (173), Expect = 7e-13
Identities = 36/103 (34%), Positives = 65/103 (63%), Gaps = 1/103 (0%)
Frame = +2
Query: 359 SKESFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQ 538
+ S + D+ +P A + +++K +P ++A DA+E V C +EFI ++SEA+E C++
Sbjct: 2 ASSSGNDDDLTIPRAAINKMIKETLPNV-RVANDARELVVNCCTEFIHLVSSEANEICNK 60
Query: 539 EKRKTINGEDTLFAMSTLGFDSYVEPLKLYLQKFRE-AMKGEK 664
++KTI+ E + A+ +LGF SY+ +K LQ+ + A+K K
Sbjct: 61 SEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRK 103
>ref|XP_003361745.1| PREDICTED: protein Dr1-like [Sus scrofa].
Length = 173
Score = 62.8 bits (151), Expect = 2e-10
Identities = 32/89 (35%), Positives = 56/89 (62%), Gaps = 1/89 (1%)
Frame = +2
Query: 401 ANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLFA 580
A + +++K +P ++A DA+E V C +EFI ++SEA+E C++ ++KTI+ E + A
Sbjct: 13 AAINKMIKETLPNV-RVANDARELVVNCCTEFIHLVSSEANEICNKSEKKTISPEHVIQA 71
Query: 581 MSTLGFDSYVEPLKLYLQKFRE-AMKGEK 664
+ +LGF SY+ LQ+ + A+K K
Sbjct: 72 LESLGFGSYISXXXXXLQECKTVALKRRK 100
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: 17,825,062
Number of extensions: 413501
Number of successful extensions: 1223
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 1220
Number of HSP's successfully gapped: 5
Length of query: 283
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 185
Effective length of database: 8,904,026
Effective search space: 1647244810
Effective search space used: 1647244810
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-010044
(851 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_035044.1| nuclear transcription factor Y subunit beta [Mu... 407 e-114
Alignment gi|NP_067473.2| DNA polymerase epsilon subunit 3 [Mus musculus]. 73 3e-13
Alignment gi|NP_080382.2| protein Dr1 [Mus musculus]. 72 7e-13
>ref|NP_035044.1| nuclear transcription factor Y subunit beta [Mus musculus].
Length = 207
Score = 407 bits (1045), Expect = e-114
Identities = 204/207 (98%), Positives = 205/207 (99%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAV+ATDGLSEELTEEAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVSATDGLSEELTEEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQIQFS 838
ADGQQQNVMVYTTSYQQISGV QIQFS
Sbjct: 181 ADGQQQNVMVYTTSYQQISGVQQIQFS 207
>ref|NP_067473.2| DNA polymerase epsilon subunit 3 [Mus musculus].
Length = 145
Score = 72.8 bits (177), Expect = 3e-13
Identities = 36/97 (37%), Positives = 56/97 (57%)
Frame = +2
Query: 374 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 553
R +D+ LP A + RI+K A+P I+K+A+ + S F+ + TS A+ + KRKT
Sbjct: 4 RPEDLNLPNAVITRIIKEALPDGVNISKEARSAISRAASVFVLYATSCANNFAMKGKRKT 63
Query: 554 INGEDTLFAMSTLGFDSYVEPLKLYLQKFREAMKGEK 664
+N D L AM + F ++ PLK L+ +R KG+K
Sbjct: 64 LNASDVLSAMEEMEFQRFITPLKEALEAYRREQKGKK 100
>ref|NP_080382.2| protein Dr1 [Mus musculus].
Length = 176
Score = 71.6 bits (174), Expect = 7e-13
Identities = 37/103 (35%), Positives = 65/103 (63%), Gaps = 1/103 (0%)
Frame = +2
Query: 359 SKESFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQ 538
+ S + D+ +P A + +++K +P ++A DA+E V C +EFI I+SEA+E C++
Sbjct: 2 ASSSGNDDDLTIPRAAINKMIKETLPNV-RVANDARELVVNCCTEFIHLISSEANEICNK 60
Query: 539 EKRKTINGEDTLFAMSTLGFDSYVEPLKLYLQKFRE-AMKGEK 664
++KTI+ E + A+ +LGF SY+ +K LQ+ + A+K K
Sbjct: 61 SEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRK 103
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: 24,689,523
Number of extensions: 582808
Number of successful extensions: 1895
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 1893
Number of HSP's successfully gapped: 3
Length of query: 283
Length of database: 15,617,559
Length adjustment: 100
Effective length of query: 183
Effective length of database: 12,613,959
Effective search space: 2308354497
Effective search space used: 2308354497
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-010044
(851 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_006157.1| nuclear transcription factor Y subunit beta [Ho... 407 e-114
Alignment gi|NP_059139.3| DNA polymerase epsilon subunit 3 [Homo sapiens]. 73 3e-13
Alignment gi|NP_001929.1| protein Dr1 [Homo sapiens]. 72 8e-13
>ref|NP_006157.1| nuclear transcription factor Y subunit beta [Homo sapiens].
Length = 207
Score = 407 bits (1045), Expect = e-114
Identities = 204/207 (98%), Positives = 204/207 (98%)
Frame = +2
Query: 218 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 397
MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP
Sbjct: 1 MTMDGDSSTTDASQLGISADYIGGSHYVIQPHDDTEDSMNDHEDTNGSKESFREQDIYLP 60
Query: 398 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDTLF 577
IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGED LF
Sbjct: 61 IANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKTINGEDILF 120
Query: 578 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 757
AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT
Sbjct: 121 AMSTLGFDSYVEPLKLYLQKFREAMKGEKGIGGAVTATDGLSEELTEEAFTNQLPAGLIT 180
Query: 758 ADGQQQNVMVYTTSYQQISGVPQIQFS 838
DGQQQNVMVYTTSYQQISGV QIQFS
Sbjct: 181 TDGQQQNVMVYTTSYQQISGVQQIQFS 207
>ref|NP_059139.3| DNA polymerase epsilon subunit 3 [Homo sapiens].
Length = 147
Score = 73.2 bits (178), Expect = 3e-13
Identities = 37/97 (38%), Positives = 56/97 (57%)
Frame = +2
Query: 374 REQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQEKRKT 553
R +D+ LP A + RI+K A+P I+K+A+ + S F+ + TS A+ + KRKT
Sbjct: 4 RPEDLNLPNAVITRIIKEALPDGVNISKEARSAISRAASVFVLYATSCANNFAMKGKRKT 63
Query: 554 INGEDTLFAMSTLGFDSYVEPLKLYLQKFREAMKGEK 664
+N D L AM + F +V PLK L+ +R KG+K
Sbjct: 64 LNASDVLSAMEEMEFQRFVTPLKEALEAYRREQKGKK 100
>ref|NP_001929.1| protein Dr1 [Homo sapiens].
Length = 176
Score = 71.6 bits (174), Expect = 8e-13
Identities = 37/103 (35%), Positives = 65/103 (63%), Gaps = 1/103 (0%)
Frame = +2
Query: 359 SKESFREQDIYLPIANVARIMKNAIPQTGKIAKDAKECVQECVSEFISFITSEASERCHQ 538
+ S + D+ +P A + +++K +P ++A DA+E V C +EFI I+SEA+E C++
Sbjct: 2 ASSSGNDDDLTIPRAAINKMIKETLPNV-RVANDARELVVNCCTEFIHLISSEANEICNK 60
Query: 539 EKRKTINGEDTLFAMSTLGFDSYVEPLKLYLQKFRE-AMKGEK 664
++KTI+ E + A+ +LGF SY+ +K LQ+ + A+K K
Sbjct: 61 SEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRRK 103
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: 28,748,161
Number of extensions: 677945
Number of successful extensions: 2107
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2107
Number of HSP's successfully gapped: 3
Length of query: 283
Length of database: 18,297,164
Length adjustment: 101
Effective length of query: 182
Effective length of database: 14,967,800
Effective search space: 2724139600
Effective search space used: 2724139600
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-010044
(851 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_Chr05 391 e-106
Sscrofa_Chr02 74 1e-10
>Sscrofa_Chr05
|| Length = 111506441
Score = 391 bits (197), Expect = e-106
Identities = 200/201 (99%)
Strand = Plus / Plus
Query: 447 agattgcaaaagatgccaaagaatgtgttcaagagtgtgtgagtgagttcatcagcttta 506
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83918020 agattgcaaaagatgccaaagaatgtgttcaagagtgtgtgagtgagttcatcagcttta 83918079
Query: 507 tcacatctgaagcaagtgagagatgccatcaagagaaacggaagacaatcaatggggaag 566
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83918080 tcacatctgaagcaagtgagagatgccatcaagagaaacggaagacaatcaatggggaag 83918139
Query: 567 atactctcttcgccatgtctactctgggctttgacagttatgtagaacctctgaagttgt 626
||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83918140 atattctcttcgccatgtctactctgggctttgacagttatgtagaacctctgaagttgt 83918199
Query: 627 accttcagaagttcagagagg 647
|||||||||||||||||||||
Sbjct: 83918200 accttcagaagttcagagagg 83918220
Score = 278 bits (140), Expect = 5e-72
Identities = 140/140 (100%)
Strand = Plus / Plus
Query: 1 gaagcggcccgcggcggagggagggaaggccgagtcctggaagcggagctccgcgctggg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83903202 gaagcggcccgcggcggagggagggaaggccgagtcctggaagcggagctccgcgctggg 83903261
Query: 61 actggttccttcgcagccattttctgtccaaccaaacagccgattggagacgggagccaa 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83903262 actggttccttcgcagccattttctgtccaaccaaacagccgattggagacgggagccaa 83903321
Query: 121 ccagggctgcattggaggtt 140
||||||||||||||||||||
Sbjct: 83903322 ccagggctgcattggaggtt 83903341
Score = 262 bits (132), Expect = 3e-67
Identities = 132/132 (100%)
Strand = Plus / Plus
Query: 317 gatactgaggacagcatgaatgatcatgaagacacaaatggttcaaaagaaagttttaga 376
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83914639 gatactgaggacagcatgaatgatcatgaagacacaaatggttcaaaagaaagttttaga 83914698
Query: 377 gaacaagatatatatcttccaattgcaaatgttgcaaggataatgaaaaatgccatacct 436
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83914699 gaacaagatatatatcttccaattgcaaatgttgcaaggataatgaaaaatgccatacct 83914758
Query: 437 caaacgggaaag 448
||||||||||||
Sbjct: 83914759 caaacgggaaag 83914770
Score = 186 bits (94), Expect = 1e-44
Identities = 94/94 (100%)
Strand = Plus / Plus
Query: 224 atggacggtgacagttctacaacagatgcttctcaactcggaatttctgcagactatatt 283
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83912697 atggacggtgacagttctacaacagatgcttctcaactcggaatttctgcagactatatt 83912756
Query: 284 ggaggaagtcattatgtcatacagcctcatgatg 317
||||||||||||||||||||||||||||||||||
Sbjct: 83912757 ggaggaagtcattatgtcatacagcctcatgatg 83912790
Score = 174 bits (88), Expect = 5e-41
Identities = 88/88 (100%)
Strand = Plus / Plus
Query: 136 aggttgaaattggcaaagatcagacacctttttagacaggtgttctggagtagcactgac 195
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83905755 aggttgaaattggcaaagatcagacacctttttagacaggtgttctggagtagcactgac 83905814
Query: 196 aacacggttcacccagtatttcatgaca 223
||||||||||||||||||||||||||||
Sbjct: 83905815 aacacggttcacccagtatttcatgaca 83905842
Score = 167 bits (84), Expect = 1e-38
Identities = 84/84 (100%)
Strand = Plus / Plus
Query: 645 aggctatgaaaggagagaagggaattggtggagcagtcacagctacagatggactgagtg 704
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83919396 aggctatgaaaggagagaagggaattggtggagcagtcacagctacagatggactgagtg 83919455
Query: 705 aagagcttacagaagaggcattta 728
||||||||||||||||||||||||
Sbjct: 83919456 aagagcttacagaagaggcattta 83919479
Score = 151 bits (76), Expect = 7e-34
Identities = 79/80 (98%)
Strand = Plus / Plus
Query: 729 cgaaccagctgccagctggcttaataaccgcagatggtcagcaacaaaatgtcatggttt 788
|||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 83920490 cgaaccagttgccagctggcttaataaccgcagatggtcagcaacaaaatgtcatggttt 83920549
Query: 789 acacaacatcatatcaacag 808
||||||||||||||||||||
Sbjct: 83920550 acacaacatcatatcaacag 83920569
Score = 81.8 bits (41), Expect = 6e-13
Identities = 44/45 (97%)
Strand = Plus / Plus
Query: 807 agatctctggtgttccgcaaattcagttttcatgatctgaagaaa 851
||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 83921170 agatctctggtgttcagcaaattcagttttcatgatctgaagaaa 83921214
>Sscrofa_Chr02
|| Length = 162569375
Score = 73.8 bits (37), Expect = 1e-10
Identities = 58/65 (89%)
Strand = Plus / Plus
Query: 212 tatttcatgacaatggacggtgacagttctacaacagatgcttctcaactcggaatttct 271
|||||||||||||||||||||||||||| || |||| ||||||||||| ||||||| |
Sbjct: 83670285 tatttcatgacaatggacggtgacagttttagaacaagtgcttctcaacgaggaattttt 83670344
Query: 272 gcaga 276
|||||
Sbjct: 83670345 gcaga 83670349
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: 26,563,847
Number of extensions: 208
Number of successful extensions: 208
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 208
Number of HSP's successfully gapped: 9
Length of query: 851
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 830
Effective length of database: 2,808,413,156
Effective search space: 2330982919480
Effective search space used: 2330982919480
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)