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-003054
(1056 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_001033153.1| general transcription factor IIF subunit 2 [... 486 e-137
Alignment gi|NP_001093809.1| hypothetical protein LOC511494 [Bos taurus]. 344 7e-95
Alignment gi|XP_002705465.1| PREDICTED: general transcription factor IIF,... 344 7e-95
Alignment gi|XP_002692227.1| PREDICTED: general transcription factor IIF,... 232 5e-61
>ref|NP_001033153.1| general transcription factor IIF subunit 2 [Bos taurus].
Length = 249
Score = 486 bits (1252), Expect = e-137
Identities = 241/249 (96%), Positives = 246/249 (98%)
Frame = +1
Query: 193 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE 372
MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE
Sbjct: 1 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE 60
Query: 373 ELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 552
+LANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA
Sbjct: 61 DLANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 120
Query: 553 SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 732
+ENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK
Sbjct: 121 NENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 180
Query: 733 QYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYR 912
Q+VLDMLFSAFEKHQYYNLKDLVDITKQPVSYLK+ILKEIG+QNVKGIHKNTWELKPEYR
Sbjct: 181 QHVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKDILKEIGVQNVKGIHKNTWELKPEYR 240
Query: 913 HLSAEEKSD 939
H EEKSD
Sbjct: 241 HYQVEEKSD 249
>ref|NP_001093809.1| hypothetical protein LOC511494 [Bos taurus].
Length = 257
Score = 344 bits (883), Expect = 7e-95
Identities = 169/247 (68%), Positives = 198/247 (80%)
Frame = +1
Query: 172 ASAGDRPMAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTE 351
AS G R + L+L G +QN +WLVKVPKYLSQQW++APG GEVGKL+IA NQG++E
Sbjct: 2 ASGGSRLKPQSIPLNLEGIRQNQRMWLVKVPKYLSQQWSEAPGSGEVGKLKIATNQGKSE 61
Query: 352 VSFTLNEELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQR 531
+SFTLN+EL +I G+PASV AP EH F+LQ+ GQ LTV TE D+ SL+G VV R
Sbjct: 62 ISFTLNKELTDIRGTDGQPASVHAPMEHQFLLQTDRGQVLTVLTEHEPDQFSLQGTVVHR 121
Query: 532 AECRPAASENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDG 711
ECRPA SENYMRLKR+QIE +SKP R Q+L+KVVTTNYKPVANHQYNIEYE++KKE G
Sbjct: 122 GECRPAPSENYMRLKRMQIEGASKPARTVQKLEKVVTTNYKPVANHQYNIEYEKRKKETG 181
Query: 712 KRARADKQYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTW 891
KR +ADK VL +LF+AFEKHQYYN+KDLV IT QPV YLKEIL EIG++NVKG HKNTW
Sbjct: 182 KRVKADKDQVLTLLFAAFEKHQYYNIKDLVGITMQPVVYLKEILNEIGVRNVKGPHKNTW 241
Query: 892 ELKPEYR 912
ELK EYR
Sbjct: 242 ELKEEYR 248
>ref|XP_002705465.1| PREDICTED: general transcription factor IIF, polypeptide 2,
30kDa-like [Bos taurus].
Length = 257
Score = 344 bits (883), Expect = 7e-95
Identities = 169/247 (68%), Positives = 198/247 (80%)
Frame = +1
Query: 172 ASAGDRPMAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTE 351
AS G R + L+L G +QN +WLVKVPKYLSQQW++APG GEVGKL+IA NQG++E
Sbjct: 2 ASGGSRLKPQSIPLNLEGIRQNQRMWLVKVPKYLSQQWSEAPGSGEVGKLKIATNQGKSE 61
Query: 352 VSFTLNEELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQR 531
+SFTLN+EL +I G+PASV AP EH F+LQ+ GQ LTV TE D+ SL+G VV R
Sbjct: 62 ISFTLNKELTDIRGTDGQPASVHAPMEHQFLLQTDRGQVLTVLTEHEPDQFSLQGTVVHR 121
Query: 532 AECRPAASENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDG 711
ECRPA SENYMRLKR+QIE +SKP R Q+L+KVVTTNYKPVANHQYNIEYE++KKE G
Sbjct: 122 GECRPAPSENYMRLKRMQIEGASKPARTVQKLEKVVTTNYKPVANHQYNIEYEKRKKETG 181
Query: 712 KRARADKQYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTW 891
KR +ADK VL +LF+AFEKHQYYN+KDLV IT QPV YLKEIL EIG++NVKG HKNTW
Sbjct: 182 KRVKADKDQVLTLLFAAFEKHQYYNIKDLVGITMQPVVYLKEILNEIGVRNVKGPHKNTW 241
Query: 892 ELKPEYR 912
ELK EYR
Sbjct: 242 ELKEEYR 248
>ref|XP_002692227.1| PREDICTED: general transcription factor IIF, polypeptide 2,
30kDa-like, partial [Bos taurus].
Length = 118
Score = 232 bits (591), Expect = 5e-61
Identities = 112/118 (94%), Positives = 115/118 (97%)
Frame = +1
Query: 586 IEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADKQYVLDMLFSAF 765
IEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADKQ+VLDMLFSAF
Sbjct: 1 IEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADKQHVLDMLFSAF 60
Query: 766 EKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYRHLSAEEKSD 939
EKHQYYNLKDLVDITKQPVSYLK+ILKEIG+QNVKGIHKNTWELKPEYRH EEKSD
Sbjct: 61 EKHQYYNLKDLVDITKQPVSYLKDILKEIGVQNVKGIHKNTWELKPEYRHYQVEEKSD 118
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: 37,337,444
Number of extensions: 943868
Number of successful extensions: 3572
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 3549
Number of HSP's successfully gapped: 4
Length of query: 352
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 249
Effective length of database: 14,273,310
Effective search space: 3554054190
Effective search space used: 3554054190
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-003054
(1056 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_851466.1| PREDICTED: similar to general transcription fac... 489 e-138
Alignment gi|XP_545520.1| PREDICTED: similar to general transcription fac... 454 e-128
>ref|XP_851466.1| PREDICTED: similar to general transcription factor IIF, polypeptide
2 [Canis familiaris].
Length = 356
Score = 489 bits (1258), Expect = e-138
Identities = 245/257 (95%), Positives = 248/257 (96%), Gaps = 1/257 (0%)
Frame = +1
Query: 172 ASAGD-RPMAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRT 348
AS G RPMAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRT
Sbjct: 100 ASPGSSRPMAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRT 159
Query: 349 EVSFTLNEELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQ 528
EVSFTLNE+LANIHDIGGKPASVS PREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQ
Sbjct: 160 EVSFTLNEDLANIHDIGGKPASVSTPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQ 219
Query: 529 RAECRPAASENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKED 708
RAECRPAASENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKED
Sbjct: 220 RAECRPAASENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKED 279
Query: 709 GKRARADKQYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNT 888
GKRARADKQ+VLDMLFSAFEKHQYYNLKDLVDITKQPV YLKEILKEIG+QNVKG HKNT
Sbjct: 280 GKRARADKQHVLDMLFSAFEKHQYYNLKDLVDITKQPVGYLKEILKEIGVQNVKGTHKNT 339
Query: 889 WELKPEYRHLSAEEKSD 939
WELKPEYRH EEKSD
Sbjct: 340 WELKPEYRHYQGEEKSD 356
>ref|XP_545520.1| PREDICTED: similar to general transcription factor IIF, polypeptide
2 [Canis familiaris].
Length = 245
Score = 454 bits (1168), Expect = e-128
Identities = 228/246 (92%), Positives = 233/246 (94%)
Frame = +1
Query: 193 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE 372
MA+RGELDLT KQNTGVWLVKVPKYLSQQWAK PGRGEVGKLRIAKNQGRTEVSFTLNE
Sbjct: 1 MAKRGELDLTSTKQNTGVWLVKVPKYLSQQWAKDPGRGEVGKLRIAKNQGRTEVSFTLNE 60
Query: 373 ELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 552
+LANIHDIGGK ASVS PREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPA
Sbjct: 61 DLANIHDIGGKLASVSTPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAT 120
Query: 553 SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 732
SE YMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK
Sbjct: 121 SEKYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 180
Query: 733 QYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYR 912
Q+VLDMLFSAFEKHQYYNLKDLVDITKQPV YLKEILKEIG+QNVKG HK TWELKPEYR
Sbjct: 181 QHVLDMLFSAFEKHQYYNLKDLVDITKQPVGYLKEILKEIGVQNVKGTHK-TWELKPEYR 239
Query: 913 HLSAEE 930
H +E
Sbjct: 240 HYQGKE 245
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: 39,012,560
Number of extensions: 973200
Number of successful extensions: 3721
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 3686
Number of HSP's successfully gapped: 2
Length of query: 352
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 248
Effective length of database: 15,407,560
Effective search space: 3821074880
Effective search space used: 3821074880
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: 35 (18.1 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-003054
(1056 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_004119.1| general transcription factor IIF subunit 2 [Hom... 481 e-136
>ref|NP_004119.1| general transcription factor IIF subunit 2 [Homo sapiens].
Length = 249
Score = 481 bits (1238), Expect = e-136
Identities = 240/249 (96%), Positives = 243/249 (97%)
Frame = +1
Query: 193 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE 372
MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKA GRGEVGKLRIAK QGRTEVSFTLNE
Sbjct: 1 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKTQGRTEVSFTLNE 60
Query: 373 ELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 552
+LANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA
Sbjct: 61 DLANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 120
Query: 553 SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 732
SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK
Sbjct: 121 SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 180
Query: 733 QYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYR 912
Q+VLDMLFSAFEKHQYYNLKDLVDITKQPV YLKEILKEIG+QNVKGIHKNTWELKPEYR
Sbjct: 181 QHVLDMLFSAFEKHQYYNLKDLVDITKQPVVYLKEILKEIGVQNVKGIHKNTWELKPEYR 240
Query: 913 HLSAEEKSD 939
H EEKSD
Sbjct: 241 HYQGEEKSD 249
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: 38,277,025
Number of extensions: 958953
Number of successful extensions: 3613
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3585
Number of HSP's successfully gapped: 1
Length of query: 352
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 248
Effective length of database: 14,868,908
Effective search space: 3687489184
Effective search space used: 3687489184
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: 35 (18.1 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-003054
(1056 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_081092.1| general transcription factor IIF subunit 2 [Mus... 483 e-137
>ref|NP_081092.1| general transcription factor IIF subunit 2 [Mus musculus].
Length = 249
Score = 483 bits (1244), Expect = e-137
Identities = 241/249 (96%), Positives = 244/249 (97%)
Frame = +1
Query: 193 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE 372
MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKA GRGEVGKLRIAKNQGRTEVSFTLNE
Sbjct: 1 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKASGRGEVGKLRIAKNQGRTEVSFTLNE 60
Query: 373 ELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 552
+LANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA
Sbjct: 61 DLANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 120
Query: 553 SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 732
SENYM+LKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK
Sbjct: 121 SENYMKLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 180
Query: 733 QYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYR 912
Q+VLDMLFSAFEKHQYYNLKDLVDITKQPV YLKEILKEIGIQNVKGIHKNTWELKPEYR
Sbjct: 181 QHVLDMLFSAFEKHQYYNLKDLVDITKQPVGYLKEILKEIGIQNVKGIHKNTWELKPEYR 240
Query: 913 HLSAEEKSD 939
H EEKSD
Sbjct: 241 HYQTEEKSD 249
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: 32,525,251
Number of extensions: 806112
Number of successful extensions: 2810
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2802
Number of HSP's successfully gapped: 1
Length of query: 352
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 250
Effective length of database: 12,553,887
Effective search space: 3138471750
Effective search space used: 3138471750
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-003054
(1056 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_001230557.1| general transcription factor IIF, polypeptid... 494 e-140
>ref|NP_001230557.1| general transcription factor IIF, polypeptide 2, 30kDa [Sus
scrofa].
Length = 249
Score = 494 bits (1271), Expect = e-140
Identities = 247/249 (99%), Positives = 247/249 (99%)
Frame = +1
Query: 193 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE 372
MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE
Sbjct: 1 MAERGELDLTGAKQNTGVWLVKVPKYLSQQWAKAPGRGEVGKLRIAKNQGRTEVSFTLNE 60
Query: 373 ELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 552
ELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA
Sbjct: 61 ELANIHDIGGKPASVSAPREHPFVLQSVGGQTLTVFTESSSDKLSLEGIVVQRAECRPAA 120
Query: 553 SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 732
SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK
Sbjct: 121 SENYMRLKRLQIEESSKPVRLSQQLDKVVTTNYKPVANHQYNIEYERKKKEDGKRARADK 180
Query: 733 QYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYR 912
QYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYR
Sbjct: 181 QYVLDMLFSAFEKHQYYNLKDLVDITKQPVSYLKEILKEIGIQNVKGIHKNTWELKPEYR 240
Query: 913 HLSAEEKSD 939
H AEEKSD
Sbjct: 241 HYQAEEKSD 249
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: 24,003,291
Number of extensions: 603155
Number of successful extensions: 2215
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2192
Number of HSP's successfully gapped: 1
Length of query: 352
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 252
Effective length of database: 8,854,232
Effective search space: 2231266464
Effective search space used: 2231266464
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-003054
(1056 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_Chr11 482 e-133
gb|JH118647.1| Sus scrofa unplaced genomic scaffold ChrUScaf1461 392 e-106
>Sscrofa_Chr11
|| Length = 87690581
Score = 482 bits (243), Expect = e-133
Identities = 243/243 (100%)
Strand = Plus / Plus
Query: 18 ctggcggcgtgttcctcttttcctggggctcccggcatcccggtcggtcggtggacgccg 77
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22320039 ctggcggcgtgttcctcttttcctggggctcccggcatcccggtcggtcggtggacgccg 22320098
Query: 78 actctgcaccgcttcccattcgcggccttccctgtgctccggtcgttcgccccgcagttc 137
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22320099 actctgcaccgcttcccattcgcggccttccctgtgctccggtcgttcgccccgcagttc 22320158
Query: 138 acccagctcccggggccgctgctcaggtttgtacgcctccgctggcgacagacccatggc 197
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22320159 acccagctcccggggccgctgctcaggtttgtacgcctccgctggcgacagacccatggc 22320218
Query: 198 tgagcgcggggaactcgacctcacgggcgccaaacagaacactggagtgtggctggtcaa 257
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22320219 tgagcgcggggaactcgacctcacgggcgccaaacagaacactggagtgtggctggtcaa 22320278
Query: 258 ggt 260
|||
Sbjct: 22320279 ggt 22320281
Score = 285 bits (144), Expect = 2e-74
Identities = 150/152 (98%)
Strand = Plus / Minus
Query: 350 aggtgtcatttactttgaatgaggaacttgcaaatattcatgatattggcggaaaaccag 409
|||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 22421202 aggtgtcatttactttgaatgaggaacttgcaaatattcatgatattggcggcaaaccag 22421143
Query: 410 cttcagtcagtgctcctagagaacatccatttgtcttgcaaagtgttggaggacagacat 469
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22421142 cttcagtcagtgctcctagagaacatccatttgtcttgcaaagtgttggaggacagacat 22421083
Query: 470 taacagtgtttactgagagctcatcagataag 501
||||||||||||||||||||||||||| ||||
Sbjct: 22421082 taacagtgtttactgagagctcatcaggtaag 22421051
Score = 202 bits (102), Expect = 3e-49
Identities = 102/102 (100%)
Strand = Plus / Plus
Query: 577 agattacaaatagaagaatcttctaaacctgtaaggctctcacaacaactggacaaagtc 636
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22377010 agattacaaatagaagaatcttctaaacctgtaaggctctcacaacaactggacaaagtc 22377069
Query: 637 gtgacaaccaattacaaacctgttgctaatcatcaatacaat 678
||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22377070 gtgacaaccaattacaaacctgttgctaatcatcaatacaat 22377111
Score = 167 bits (84), Expect = 2e-38
Identities = 84/84 (100%)
Strand = Plus / Plus
Query: 495 agataagctgtccctggaaggaatagtggtacaaagagcagaatgccgacctgccgccag 554
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22380879 agataagctgtccctggaaggaatagtggtacaaagagcagaatgccgacctgccgccag 22380938
Query: 555 tgaaaactacatgagactaaagag 578
||||||||||||||||||||||||
Sbjct: 22380939 tgaaaactacatgagactaaagag 22380962
Score = 153 bits (77), Expect = 2e-34
Identities = 77/77 (100%)
Strand = Plus / Minus
Query: 257 aggttcctaaatatttgtcacagcagtgggctaaagcccctggaagaggtgaagttggga 316
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 22433263 aggttcctaaatatttgtcacagcagtgggctaaagcccctggaagaggtgaagttggga 22433204
Query: 317 aactacggattgccaag 333
|||||||||||||||||
Sbjct: 22433203 aactacggattgccaag 22433187
>gb|JH118647.1| Sus scrofa unplaced genomic scaffold ChrUScaf1461
Length = 245847
Score = 392 bits (198), Expect = e-106
Identities = 228/236 (96%), Gaps = 2/236 (0%)
Strand = Plus / Plus
Query: 822 gtcgtacctgaaggaaatcttaaaagaaatcggtattcagaatgtaaaagggatccacaa 881
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 146886 gtcgtacctgaaggaaatcttaaaagaaatcggtattcagaatgtaaaagggatccacaa 146945
Query: 882 aaacacttgggagctgaagccagagtacagacatttatca-gcagaagaaaagagtgatt 940
||||||||||||||||||||||||||||||||||| |||| |||||||||||||||||||
Sbjct: 146946 aaacacttgggagctgaagccagagtacagacatt-atcaagcagaagaaaagagtgatt 147004
Query: 941 aagaagactcaggcccgcctgttaacagaacaactncagggtgacgcgctattaataata 1000
||||||||||||||||||||||||||||||||||| |||||||||||||| ||||||||
Sbjct: 147005 aagaagactcaggcccgcctgttaacagaacaactcaagggtgacgcgctaataataata 147064
Query: 1001 agcaagcgggcttgatacctgaagacttgagcaccgtctgtgtangggggaaatga 1056
||||||||| |||||||||||||||||||||||||||||||||| |||| ||||||
Sbjct: 147065 agcaagcggccttgatacctgaagacttgagcaccgtctgtgtagggggaaaatga 147120
Score = 285 bits (144), Expect = 2e-74
Identities = 150/152 (98%)
Strand = Plus / Plus
Query: 350 aggtgtcatttactttgaatgaggaacttgcaaatattcatgatattggcggaaaaccag 409
|||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 43713 aggtgtcatttactttgaatgaggaacttgcaaatattcatgatattggcggcaaaccag 43772
Query: 410 cttcagtcagtgctcctagagaacatccatttgtcttgcaaagtgttggaggacagacat 469
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43773 cttcagtcagtgctcctagagaacatccatttgtcttgcaaagtgttggaggacagacat 43832
Query: 470 taacagtgtttactgagagctcatcagataag 501
||||||||||||||||||||||||||| ||||
Sbjct: 43833 taacagtgtttactgagagctcatcaggtaag 43864
Score = 285 bits (144), Expect = 2e-74
Identities = 144/144 (100%)
Strand = Plus / Plus
Query: 679 attgaatatgaaaggaaaaagaaagaagatggaaaacgagcccgagctgataagcaatat 738
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130832 attgaatatgaaaggaaaaagaaagaagatggaaaacgagcccgagctgataagcaatat 130891
Query: 739 gttttggatatgctgttttcggcttttgagaaacaccagtattacaacctgaaggacctg 798
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 130892 gttttggatatgctgttttcggcttttgagaaacaccagtattacaacctgaaggacctg 130951
Query: 799 gtggacatcacgaaacagcctgtg 822
||||||||||||||||||||||||
Sbjct: 130952 gtggacatcacgaaacagcctgtg 130975
Score = 238 bits (120), Expect = 5e-60
Identities = 120/120 (100%)
Strand = Plus / Plus
Query: 100 cggccttccctgtgctccggtcgttcgccccgcagttcacccagctcccggggccgctgc 159
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 20657 cggccttccctgtgctccggtcgttcgccccgcagttcacccagctcccggggccgctgc 20716
Query: 160 tcaggtttgtacgcctccgctggcgacagacccatggctgagcgcggggaactcgacctc 219
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 20717 tcaggtttgtacgcctccgctggcgacagacccatggctgagcgcggggaactcgacctc 20776
Score = 202 bits (102), Expect = 3e-49
Identities = 102/102 (100%)
Strand = Plus / Plus
Query: 577 agattacaaatagaagaatcttctaaacctgtaaggctctcacaacaactggacaaagtc 636
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121145 agattacaaatagaagaatcttctaaacctgtaaggctctcacaacaactggacaaagtc 121204
Query: 637 gtgacaaccaattacaaacctgttgctaatcatcaatacaat 678
||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121205 gtgacaaccaattacaaacctgttgctaatcatcaatacaat 121246
Score = 153 bits (77), Expect = 2e-34
Identities = 77/77 (100%)
Strand = Plus / Plus
Query: 1 tgcgcaattctcgactcctggcggcgtgttcctcttttcctggggctcccggcatcccgg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 20480 tgcgcaattctcgactcctggcggcgtgttcctcttttcctggggctcccggcatcccgg 20539
Query: 61 tcggtcggtggacgccg 77
|||||||||||||||||
Sbjct: 20540 tcggtcggtggacgccg 20556
Score = 153 bits (77), Expect = 2e-34
Identities = 77/77 (100%)
Strand = Plus / Plus
Query: 257 aggttcctaaatatttgtcacagcagtgggctaaagcccctggaagaggtgaagttggga 316
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 36049 aggttcctaaatatttgtcacagcagtgggctaaagcccctggaagaggtgaagttggga 36108
Query: 317 aactacggattgccaag 333
|||||||||||||||||
Sbjct: 36109 aactacggattgccaag 36125
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: 31,849,862
Number of extensions: 336
Number of successful extensions: 336
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 335
Number of HSP's successfully gapped: 12
Length of query: 1056
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1035
Effective length of database: 2,808,413,156
Effective search space: 2906707616460
Effective search space used: 2906707616460
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)