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-009423
(871 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_001073074.1| exosome complex component RRP43 [Bos taurus]. 111 7e-25
Alignment gi|NP_001030225.1| exosome complex component RRP45 [Bos taurus]. 104 9e-23
>ref|NP_001073074.1| exosome complex component RRP43 [Bos taurus].
Length = 276
Score = 111 bits (278), Expect = 7e-25
Identities = 75/264 (28%), Positives = 124/264 (46%), Gaps = 5/264 (1%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V + GSA VKLG+T ++ G+KAE G P + P++G
Sbjct: 18 LKENCRPDGRELGEFRTTTVNVGSIGTADGSALVKLGNTTVICGIKAEFGAPPTDAPDKG 77
Query: 261 YLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCWILYV 440
Y+ VD S + F E + + + N I + LCIS+ + W+LY
Sbjct: 78 YVVPNVDLSPLCSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISSGKLAWVLYC 137
Query: 441 DVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIQLNVENV 620
D++ L GN+ DA + A+ AAL N ++P V + +E ++ L C LN+
Sbjct: 138 DLICLNHDGNILDACTFALLAALKNVQLPEV-TINEETALAEVNLKKK--SC--LNIRTH 192
Query: 621 PCIVTLCKI-GYRHVVDATLQEEACSLASLLVAVTSKGVVTCMRKVGKGSLDPESIFEMM 797
P + +VD T +EE + +L V + +G + C+ K G L + + M
Sbjct: 193 PVATSFAVFDDTLLIVDPTEEEEHLATGTLTVVMDEEGRLCCLHKPGGSGLTGAKLQDCM 252
Query: 798 ETG----KRVGKVLHTSLQSLLHK 857
K V K++ +S+ K
Sbjct: 253 SRAVTRHKEVKKLMDEVFKSMKPK 276
>ref|NP_001030225.1| exosome complex component RRP45 [Bos taurus].
Length = 440
Score = 104 bits (260), Expect = 9e-23
Identities = 75/245 (30%), Positives = 118/245 (48%), Gaps = 2/245 (0%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
M LS E+ +++ ++E R+DGR DYR +++ G V+LG T +L
Sbjct: 1 MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIKIS---FGTDYGCCIVELGKTRVLG 57
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
V E+ +PKL + EG L F ++ S A P FE +L ++ L R N ID
Sbjct: 58 QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLLERCLRNSKCID 117
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
+SLC+ E W + VD+ LL GN+ DA SIA AL + R P V V DE +
Sbjct: 118 TESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSVQGDEVTLYTL 177
Query: 570 ELSDDPYDCIQLNVENVPCIVTLC--KIGYRHVVDATLQEEACSLASLLVAVTSKGVVTC 743
E D + L++ ++P V+ + G +VD + +EE L++A+ +
Sbjct: 178 EERDP----VPLSIHHMPICVSFAFFQQGTYLLVDPSEREERVMDGLLVIAMNKHREICT 233
Query: 744 MRKVG 758
++ G
Sbjct: 234 IQSSG 238
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: 32,114,030
Number of extensions: 862348
Number of successful extensions: 3577
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 3543
Number of HSP's successfully gapped: 2
Length of query: 290
Length of database: 17,681,374
Length adjustment: 101
Effective length of query: 189
Effective length of database: 14,339,486
Effective search space: 2710162854
Effective search space used: 2710162854
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-009423
(871 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_533858.2| PREDICTED: similar to Exosome complex exonuclea... 541 e-154
Alignment gi|XP_864681.1| PREDICTED: similar to Exosome complex exonuclea... 289 3e-78
Alignment gi|XP_534492.2| PREDICTED: similar to Exosome complex exonuclea... 115 5e-26
Alignment gi|XP_857380.1| PREDICTED: similar to exosome component 9 isofo... 103 3e-22
Alignment gi|XP_533302.2| PREDICTED: similar to exosome component 9 isofo... 103 3e-22
Alignment gi|XP_857305.1| PREDICTED: similar to Exosome complex exonuclea... 100 2e-21
Alignment gi|XP_857268.1| PREDICTED: similar to Exosome complex exonuclea... 89 4e-18
>ref|XP_533858.2| PREDICTED: similar to Exosome complex exonuclease RRP42 (Ribosomal
RNA processing protein 42) (Exosome component 7) (p8)
isoform 1 [Canis familiaris].
Length = 291
Score = 541 bits (1393), Expect = e-154
Identities = 269/280 (96%), Positives = 274/280 (97%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV
Sbjct: 1 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 60
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGD+LGTEIANTLYRIFNNK SID
Sbjct: 61 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDDLGTEIANTLYRIFNNKSSID 120
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
LKSLCIS REHCWILYVDVLLLECGGNLFD I IAVKAALFNTRIPRVRVLEDEEGSKDI
Sbjct: 121 LKSLCISPREHCWILYVDVLLLECGGNLFDTICIAVKAALFNTRIPRVRVLEDEEGSKDI 180
Query: 570 ELSDDPYDCIQLNVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVAVTSKGVVTCMR 749
ELSDDPYDC +L+VENVPCIVTLCKIGYRHVVDATLQEEACSLASLLV+VTSKGVVTCMR
Sbjct: 181 ELSDDPYDCFRLSVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVSVTSKGVVTCMR 240
Query: 750 KVGKGSLDPESIFEMMETGKRVGKVLHTSLQSLLHKEESL 869
KVGKGSLDPESIFEMMETGKRVGKVLH SLQS+LHKEESL
Sbjct: 241 KVGKGSLDPESIFEMMETGKRVGKVLHASLQSVLHKEESL 280
>ref|XP_864681.1| PREDICTED: similar to Exosome complex exonuclease RRP42 (Ribosomal
RNA processing protein 42) (Exosome component 7) (p8)
isoform 2 [Canis familiaris].
Length = 224
Score = 289 bits (739), Expect = 3e-78
Identities = 141/144 (97%), Positives = 142/144 (98%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV
Sbjct: 1 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 60
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGD+LGTEIANTLYRIFNNK SID
Sbjct: 61 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDDLGTEIANTLYRIFNNKSSID 120
Query: 390 LKSLCISTREHCWILYVDVLLLEC 461
LKSLCIS REHCWILYVDVLLLEC
Sbjct: 121 LKSLCISPREHCWILYVDVLLLEC 144
Score = 130 bits (327), Expect = 2e-30
Identities = 66/69 (95%), Positives = 68/69 (98%)
Frame = +3
Query: 663 VDATLQEEACSLASLLVAVTSKGVVTCMRKVGKGSLDPESIFEMMETGKRVGKVLHTSLQ 842
VDATLQEEACSLASLLV+VTSKGVVTCMRKVGKGSLDPESIFEMMETGKRVGKVLH SLQ
Sbjct: 145 VDATLQEEACSLASLLVSVTSKGVVTCMRKVGKGSLDPESIFEMMETGKRVGKVLHASLQ 204
Query: 843 SLLHKEESL 869
S+LHKEESL
Sbjct: 205 SVLHKEESL 213
>ref|XP_534492.2| PREDICTED: similar to Exosome complex exonuclease RRP43 (Ribosomal
RNA processing protein 43) (Exosome component 8) (p9)
(Opa-interacting protein 2) isoform 1 [Canis
familiaris].
Length = 276
Score = 115 bits (288), Expect = 5e-26
Identities = 75/264 (28%), Positives = 125/264 (47%), Gaps = 5/264 (1%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V +S GSA VKLG+T ++ G+KAE P + P++G
Sbjct: 18 LKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGIKAEFAAPPTDAPDKG 77
Query: 261 YLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCWILYV 440
Y+ VD + F E + + + N I + LCIS + W+LY
Sbjct: 78 YVVPNVDLPPLCSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLSWVLYC 137
Query: 441 DVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIQLNVENV 620
D++ L+ GN+ DA + A+ AAL N ++P V + +E G ++ L Y LN+
Sbjct: 138 DIICLDYDGNILDACTFALLAALKNAQLPEV-TINEETGLAEVNLKKKSY----LNIRTH 192
Query: 621 PCIVTLCKI-GYRHVVDATLQEEACSLASLLVAVTSKGVVTCMRKVGKGSLDPESIFEMM 797
P + +VD T +EE + +L V + +G + C+ K G L + + M
Sbjct: 193 PVATSFAVFDDTLLIVDPTGEEEHLATGTLTVVMDEEGKLCCLHKPGGSGLTGAKLQDCM 252
Query: 798 ETG----KRVGKVLHTSLQSLLHK 857
K V K++ ++S+ K
Sbjct: 253 SRAVTRHKEVKKLMDEVIKSMKPK 276
>ref|XP_857380.1| PREDICTED: similar to exosome component 9 isoform 2 [Canis
familiaris].
Length = 403
Score = 103 bits (256), Expect = 3e-22
Identities = 73/245 (29%), Positives = 118/245 (48%), Gaps = 2/245 (0%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
M LS E+ +++ ++E R+DGR DYR +++ G V+LG T +L
Sbjct: 1 MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIKIS---FGTDYGCCIVELGKTRVLG 57
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
V E+ +PKL + EG L F ++ S A P FE +L ++ L R N ID
Sbjct: 58 QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLLERCLRNSKCID 117
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
+SLC+ E W + VD+ LL GN+ DA SIA AL + R P V V +G +
Sbjct: 118 TESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSV----QGDEVT 173
Query: 570 ELSDDPYDCIQLNVENVPCIVTLC--KIGYRHVVDATLQEEACSLASLLVAVTSKGVVTC 743
+ + D + L++ ++P V+ + G +VD +EE L++A+ +
Sbjct: 174 LYTPEERDPVPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICT 233
Query: 744 MRKVG 758
++ G
Sbjct: 234 IQSSG 238
>ref|XP_533302.2| PREDICTED: similar to exosome component 9 isoform 1 [Canis
familiaris].
Length = 440
Score = 103 bits (256), Expect = 3e-22
Identities = 73/245 (29%), Positives = 118/245 (48%), Gaps = 2/245 (0%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
M LS E+ +++ ++E R+DGR DYR +++ G V+LG T +L
Sbjct: 1 MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIKIS---FGTDYGCCIVELGKTRVLG 57
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
V E+ +PKL + EG L F ++ S A P FE +L ++ L R N ID
Sbjct: 58 QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLLERCLRNSKCID 117
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
+SLC+ E W + VD+ LL GN+ DA SIA AL + R P V V +G +
Sbjct: 118 TESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSV----QGDEVT 173
Query: 570 ELSDDPYDCIQLNVENVPCIVTLC--KIGYRHVVDATLQEEACSLASLLVAVTSKGVVTC 743
+ + D + L++ ++P V+ + G +VD +EE L++A+ +
Sbjct: 174 LYTPEERDPVPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICT 233
Query: 744 MRKVG 758
++ G
Sbjct: 234 IQSSG 238
>ref|XP_857305.1| PREDICTED: similar to Exosome complex exonuclease RRP43 (Ribosomal
RNA processing protein 43) (Exosome component 8) (p9)
(Opa-interacting protein 2) isoform 3 [Canis
familiaris].
Length = 210
Score = 100 bits (248), Expect = 2e-21
Identities = 57/181 (31%), Positives = 91/181 (50%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V +S GSA VKLG+T ++ G+KAE P + P++G
Sbjct: 18 LKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGIKAEFAAPPTDAPDKG 77
Query: 261 YLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCWILYV 440
Y+ VD + F E + + + N I + LCIS + W+LY
Sbjct: 78 YVVPNVDLPPLCSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLSWVLYC 137
Query: 441 DVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIQLNVENV 620
D++ L+ GN+ DA + A+ AAL N ++P V + +E G ++ L Y LN+
Sbjct: 138 DIICLDYDGNILDACTFALLAALKNAQLPEV-TINEETGLAEVNLKKKSY----LNIRTH 192
Query: 621 P 623
P
Sbjct: 193 P 193
>ref|XP_857268.1| PREDICTED: similar to Exosome complex exonuclease RRP43 (Ribosomal
RNA processing protein 43) (Exosome component 8) (p9)
(Opa-interacting protein 2) isoform 2 [Canis
familiaris].
Length = 200
Score = 89.4 bits (220), Expect = 4e-18
Identities = 48/145 (33%), Positives = 75/145 (51%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V +S GSA VKLG+T ++ G+KAE P + P++G
Sbjct: 18 LKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGIKAEFAAPPTDAPDKG 77
Query: 261 YLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCWILYV 440
Y+ VD + F E + + + N I + LCIS + W+LY
Sbjct: 78 YVVPNVDLPPLCSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLSWVLYC 137
Query: 441 DVLLLECGGNLFDAISIAVKAALFN 515
D++ L+ GN+ DA + A+ AAL N
Sbjct: 138 DIICLDYDGNILDACTFALLAALKN 162
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: 33,441,913
Number of extensions: 885447
Number of successful extensions: 3480
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 3463
Number of HSP's successfully gapped: 8
Length of query: 290
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 188
Effective length of database: 15,474,232
Effective search space: 2909155616
Effective search space used: 2909155616
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-009423
(871 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_001230753.1| exosome component 7 [Sus scrofa]. 557 e-159
Alignment gi|XP_003129265.2| PREDICTED: exosome complex component RRP45-l... 103 2e-22
Alignment gi|XP_001927006.3| PREDICTED: LOW QUALITY PROTEIN: exosome comp... 100 2e-21
>ref|NP_001230753.1| exosome component 7 [Sus scrofa].
Length = 291
Score = 557 bits (1435), Expect = e-159
Identities = 279/280 (99%), Positives = 279/280 (99%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV
Sbjct: 1 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 60
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID
Sbjct: 61 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 120
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
LKSLCIS REHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI
Sbjct: 121 LKSLCISPREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 180
Query: 570 ELSDDPYDCIQLNVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVAVTSKGVVTCMR 749
ELSDDPYDCIQLNVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVAVTSKGVVTCMR
Sbjct: 181 ELSDDPYDCIQLNVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVAVTSKGVVTCMR 240
Query: 750 KVGKGSLDPESIFEMMETGKRVGKVLHTSLQSLLHKEESL 869
KVGKGSLDPESIFEMMETGKRVGKVLHTSLQSLLHKEESL
Sbjct: 241 KVGKGSLDPESIFEMMETGKRVGKVLHTSLQSLLHKEESL 280
>ref|XP_003129265.2| PREDICTED: exosome complex component RRP45-like [Sus scrofa].
Length = 440
Score = 103 bits (256), Expect = 2e-22
Identities = 73/245 (29%), Positives = 118/245 (48%), Gaps = 2/245 (0%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
M LS E+ +++ ++E R+DGR DYR +++ G V+LG T +L
Sbjct: 1 MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIKIS---FGTDYGCCIVELGKTRVLG 57
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
V E+ +PKL + EG L F ++ S A P FE +L ++ L R N ID
Sbjct: 58 QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLLERCLRNSKCID 117
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
+SLC+ E W + VD+ LL GN+ DA SIA AL + R P V V +G +
Sbjct: 118 TESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSV----QGDEVT 173
Query: 570 ELSDDPYDCIQLNVENVPCIVTLC--KIGYRHVVDATLQEEACSLASLLVAVTSKGVVTC 743
+ + D + L++ ++P V+ + G +VD +EE L++A+ +
Sbjct: 174 LYTPEERDPVPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICT 233
Query: 744 MRKVG 758
++ G
Sbjct: 234 IQSSG 238
>ref|XP_001927006.3| PREDICTED: LOW QUALITY PROTEIN: exosome complex component
RRP43-like [Sus scrofa].
Length = 246
Score = 99.8 bits (247), Expect = 2e-21
Identities = 69/263 (26%), Positives = 115/263 (43%), Gaps = 4/263 (1%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V + GS+ VKLG+T ++ G+KAE G P + P++G
Sbjct: 18 LKENCRPDGRELGEFRTTTVNVGSIGTADGSSLVKLGNTTVICGIKAEFGAPPTDAPDKG 77
Query: 261 YLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCWILYV 440
Y+ VD S + F E + + + N I + LCIS + W+LY
Sbjct: 78 YIVPNVDLSPLCSWRFRSGPPGEEAQVASQFIADVIXNSQIIQKEDLCISPGKLAWVLYC 137
Query: 441 DVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIQLNVENV 620
D++ L GN+ DA + A+ AAL N ++P V + N
Sbjct: 138 DLICLNHDGNILDACTFALLAALKNVQLPEVNI-------------------------NX 172
Query: 621 PCIVTLCKIGYRHVVDATLQEEACSLASLLVAVTSKGVVTCMRKVGKGSLDPESIFEMME 800
++ +VD T +EE + +L V + +G + C+ K G L + + M
Sbjct: 173 XTLL---------IVDPTEEEEHLATGTLTVVMDEEGKLCCLHKPGGSGLTGAKLQDCMS 223
Query: 801 TG----KRVGKVLHTSLQSLLHK 857
K V K++ +S+ K
Sbjct: 224 RAVTRHKEVKKLMDEVFKSMKPK 246
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: 20,665,020
Number of extensions: 556062
Number of successful extensions: 2301
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2280
Number of HSP's successfully gapped: 4
Length of query: 290
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 192
Effective length of database: 8,904,026
Effective search space: 1709572992
Effective search space used: 1709572992
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-009423
(871 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_001074657.1| exosome complex exonuclease RRP42 [Mus muscu... 536 e-153
Alignment gi|NP_081424.3| exosome complex component RRP43 isoform 2 [Mus ... 120 2e-27
Alignment gi|NP_001157042.1| exosome complex component RRP43 isoform 1 [M... 119 3e-27
Alignment gi|NP_062266.1| exosome complex component RRP45 [Mus musculus]. 104 1e-22
>ref|NP_001074657.1| exosome complex exonuclease RRP42 [Mus musculus].
Length = 291
Score = 536 bits (1382), Expect = e-153
Identities = 266/280 (95%), Positives = 275/280 (98%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV
Sbjct: 1 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 60
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGD+LGTEIANTLYRIFNNK S+D
Sbjct: 61 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDDLGTEIANTLYRIFNNKSSVD 120
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
L+SLCIS REHCW+LYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEG+KDI
Sbjct: 121 LRSLCISPREHCWVLYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGAKDI 180
Query: 570 ELSDDPYDCIQLNVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVAVTSKGVVTCMR 749
ELSDDPYDCI+L+VENVPCIVTLCKIG RHVVDATLQEEACSLASLLV+VTSKGVVTCMR
Sbjct: 181 ELSDDPYDCIRLSVENVPCIVTLCKIGCRHVVDATLQEEACSLASLLVSVTSKGVVTCMR 240
Query: 750 KVGKGSLDPESIFEMMETGKRVGKVLHTSLQSLLHKEESL 869
KVGKGSLDPESIFEMME+ KRVGKVLH SLQSLLHKEESL
Sbjct: 241 KVGKGSLDPESIFEMMESSKRVGKVLHVSLQSLLHKEESL 280
>ref|NP_081424.3| exosome complex component RRP43 isoform 2 [Mus musculus].
Length = 276
Score = 120 bits (300), Expect = 2e-27
Identities = 80/264 (30%), Positives = 124/264 (46%), Gaps = 5/264 (1%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V +S GSA VKLG+T ++ GVKAE P ++ P+ G
Sbjct: 18 LKENCRPDGRELGEFRATTVNIGSISTADGSALVKLGNTTVICGVKAEFAAPPVDAPDRG 77
Query: 261 YLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCWILYV 440
Y+ VD + F E + + + +N I + LCIS + W+LY
Sbjct: 78 YVVPNVDLPPLCSSRFRTGPPGEEAQVTSQFIADVVDNSQVIKKEDLCISPGKLAWVLYC 137
Query: 441 DVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIQLNVENV 620
D++ L+ GN+ DA + A+ AAL N ++P V + +E ++ L Y LNV
Sbjct: 138 DLICLDYDGNILDACTFALLAALKNVQLPEV-TINEETALAEVNLKKKSY----LNVRTN 192
Query: 621 PCIVTLCKI-GYRHVVDATLQEEACSLASLLVAVTSKGVVTCMRKVGKGSLDPESIFEMM 797
P + +VD T +EE S +L V G + C+ K G L + + M
Sbjct: 193 PVATSFAVFDDTLLIVDPTGEEEHLSTGTLTVVTDEDGKLCCLHKPGGSGLTGAKLQDCM 252
Query: 798 ETG----KRVGKVLHTSLQSLLHK 857
K V K+L +QS+ HK
Sbjct: 253 SRAVTRHKEVSKLLDEVIQSMRHK 276
>ref|NP_001157042.1| exosome complex component RRP43 isoform 1 [Mus musculus].
Length = 280
Score = 119 bits (298), Expect = 3e-27
Identities = 81/268 (30%), Positives = 125/268 (46%), Gaps = 9/268 (3%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V +S GSA VKLG+T ++ GVKAE P ++ P+ G
Sbjct: 18 LKENCRPDGRELGEFRATTVNIGSISTADGSALVKLGNTTVICGVKAEFAAPPVDAPDRG 77
Query: 261 YLEFF----VDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCW 428
Y+ F VD + F E + + + +N I + LCIS + W
Sbjct: 78 YVVFLSVPNVDLPPLCSSRFRTGPPGEEAQVTSQFIADVVDNSQVIKKEDLCISPGKLAW 137
Query: 429 ILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIQLN 608
+LY D++ L+ GN+ DA + A+ AAL N ++P V + +E ++ L Y LN
Sbjct: 138 VLYCDLICLDYDGNILDACTFALLAALKNVQLPEV-TINEETALAEVNLKKKSY----LN 192
Query: 609 VENVPCIVTLCKI-GYRHVVDATLQEEACSLASLLVAVTSKGVVTCMRKVGKGSLDPESI 785
V P + +VD T +EE S +L V G + C+ K G L +
Sbjct: 193 VRTNPVATSFAVFDDTLLIVDPTGEEEHLSTGTLTVVTDEDGKLCCLHKPGGSGLTGAKL 252
Query: 786 FEMMETG----KRVGKVLHTSLQSLLHK 857
+ M K V K+L +QS+ HK
Sbjct: 253 QDCMSRAVTRHKEVSKLLDEVIQSMRHK 280
>ref|NP_062266.1| exosome complex component RRP45 [Mus musculus].
Length = 438
Score = 104 bits (259), Expect = 1e-22
Identities = 77/268 (28%), Positives = 127/268 (47%), Gaps = 3/268 (1%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
M LS E+ +++ ++E R+DGR DYR + + G V+LG T +L
Sbjct: 1 MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIRIS---FGTDYGCCIVELGKTRVLG 57
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
V E+ +PKL + EG L F ++ S A P FE +L ++ L R N ID
Sbjct: 58 QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLLERCLRNSKCID 117
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
+SLC+ E W + VD+ LL GN+ DA SIA AL + R P V V +G +
Sbjct: 118 TESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSV----QGEEVT 173
Query: 570 ELSDDPYDCIQLNVENVPCIVTLC--KIGYRHVVDATLQEEACSLASLLVAVTSKGVVTC 743
+ + D + L++ ++P V+ + G +VD +EE L++A+ +
Sbjct: 174 LYTPEERDPVPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICT 233
Query: 744 MRKVGKGSLDPESIFEMME-TGKRVGKV 824
++ G L + +F + G +V ++
Sbjct: 234 IQSSGGIMLLKDQVFRCSKIAGVKVAEI 261
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: 28,099,370
Number of extensions: 744310
Number of successful extensions: 3011
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 2977
Number of HSP's successfully gapped: 4
Length of query: 290
Length of database: 15,617,559
Length adjustment: 100
Effective length of query: 190
Effective length of database: 12,613,959
Effective search space: 2396652210
Effective search space used: 2396652210
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-009423
(871 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_055819.2| exosome complex component RRP42 [Homo sapiens]. 539 e-153
Alignment gi|NP_852480.1| exosome complex component RRP43 [Homo sapiens]. 112 3e-25
Alignment gi|NP_005024.2| exosome complex component RRP45 isoform 2 [Homo... 103 2e-22
Alignment gi|NP_001029366.1| exosome complex component RRP45 isoform 1 [H... 103 2e-22
>ref|NP_055819.2| exosome complex component RRP42 [Homo sapiens].
Length = 291
Score = 539 bits (1389), Expect = e-153
Identities = 266/280 (95%), Positives = 276/280 (98%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
MASV LSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV
Sbjct: 1 MASVTLSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 60
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
GVKAEMGTPKLEKPNEGYLEFFVDCSA+ATPEFEGRGGD+LGTEIANTLYRIFNNK S+D
Sbjct: 61 GVKAEMGTPKLEKPNEGYLEFFVDCSASATPEFEGRGGDDLGTEIANTLYRIFNNKSSVD 120
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
LK+LCIS REHCW+LYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI
Sbjct: 121 LKTLCISPREHCWVLYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 180
Query: 570 ELSDDPYDCIQLNVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVAVTSKGVVTCMR 749
ELSDDPYDCI+L+VENVPCIVTLCKIGYRHVVDATLQEEACSLASLLV+VTSKGVVTCMR
Sbjct: 181 ELSDDPYDCIRLSVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVSVTSKGVVTCMR 240
Query: 750 KVGKGSLDPESIFEMMETGKRVGKVLHTSLQSLLHKEESL 869
KVGKGSLDPESIFEMMETGKRVGKVLH SLQS++HKEESL
Sbjct: 241 KVGKGSLDPESIFEMMETGKRVGKVLHASLQSVVHKEESL 280
>ref|NP_852480.1| exosome complex component RRP43 [Homo sapiens].
Length = 276
Score = 112 bits (281), Expect = 3e-25
Identities = 74/264 (28%), Positives = 124/264 (46%), Gaps = 5/264 (1%)
Frame = +3
Query: 81 VQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNEG 260
++E+ R DGR ++R V +S GSA VKLG+T ++ GVKAE P + P++G
Sbjct: 18 LKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGVKAEFAAPSTDAPDKG 77
Query: 261 YLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSIDLKSLCISTREHCWILYV 440
Y+ VD + F E + + + N I + LCIS + W+LY
Sbjct: 78 YVVPNVDLPPLCSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLVWVLYC 137
Query: 441 DVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIQLNVENV 620
D++ L+ GN+ DA + A+ AAL N ++P V + +E ++ L Y LN+
Sbjct: 138 DLICLDYDGNILDACTFALLAALKNVQLPEV-TINEETALAEVNLKKKSY----LNIRTH 192
Query: 621 PCIVTLCKI-GYRHVVDATLQEEACSLASLLVAVTSKGVVTCMRKVGKGSLDPESIFEMM 797
P + +VD T +EE + +L + + +G + C+ K G L + + M
Sbjct: 193 PVATSFAVFDDTLLIVDPTGEEEHLATGTLTIVMDEEGKLCCLHKPGGSGLTGAKLQDCM 252
Query: 798 ETG----KRVGKVLHTSLQSLLHK 857
K V K++ ++S+ K
Sbjct: 253 SRAVTRHKEVKKLMDEVIKSMKPK 276
>ref|NP_005024.2| exosome complex component RRP45 isoform 2 [Homo sapiens].
Length = 439
Score = 103 bits (257), Expect = 2e-22
Identities = 77/276 (27%), Positives = 130/276 (47%), Gaps = 3/276 (1%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
M LS E+ +++ ++E R+DGR DYR + + G V+LG T +L
Sbjct: 1 MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIRIS---FGTDYGCCIVELGKTRVLG 57
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
V E+ +PKL + EG L F ++ S A P FE +L ++ + R N ID
Sbjct: 58 QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLMERCLRNSKCID 117
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
+SLC+ E W + VD+ LL GN+ DA SIA AL + R P V V +G +
Sbjct: 118 TESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSV----QGDEVT 173
Query: 570 ELSDDPYDCIQLNVENVPCIVTLC--KIGYRHVVDATLQEEACSLASLLVAVTSKGVVTC 743
+ + D + L++ ++P V+ + G +VD +EE L++A+ +
Sbjct: 174 LYTPEERDPVPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICT 233
Query: 744 MRKVGKGSLDPESIFEMME-TGKRVGKVLHTSLQSL 848
++ G L + + + G +V ++ L++L
Sbjct: 234 IQSSGGIMLLKDQVLRCSKIAGVKVAEITELILKAL 269
>ref|NP_001029366.1| exosome complex component RRP45 isoform 1 [Homo sapiens].
Length = 456
Score = 103 bits (257), Expect = 2e-22
Identities = 77/276 (27%), Positives = 130/276 (47%), Gaps = 3/276 (1%)
Frame = +3
Query: 30 MASVALSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILV 209
M LS E+ +++ ++E R+DGR DYR + + G V+LG T +L
Sbjct: 1 MKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIRIS---FGTDYGCCIVELGKTRVLG 57
Query: 210 GVKAEMGTPKLEKPNEGYLEFFVDCSANATPEFEGRGGDELGTEIANTLYRIFNNKGSID 389
V E+ +PKL + EG L F ++ S A P FE +L ++ + R N ID
Sbjct: 58 QVSCELVSPKLNRATEGILFFNLELSQMAAPAFEPGRQSDLLVKLNRLMERCLRNSKCID 117
Query: 390 LKSLCISTREHCWILYVDVLLLECGGNLFDAISIAVKAALFNTRIPRVRVLEDEEGSKDI 569
+SLC+ E W + VD+ LL GN+ DA SIA AL + R P V V +G +
Sbjct: 118 TESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVALCHFRRPDVSV----QGDEVT 173
Query: 570 ELSDDPYDCIQLNVENVPCIVTLC--KIGYRHVVDATLQEEACSLASLLVAVTSKGVVTC 743
+ + D + L++ ++P V+ + G +VD +EE L++A+ +
Sbjct: 174 LYTPEERDPVPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICT 233
Query: 744 MRKVGKGSLDPESIFEMME-TGKRVGKVLHTSLQSL 848
++ G L + + + G +V ++ L++L
Sbjct: 234 IQSSGGIMLLKDQVLRCSKIAGVKVAEITELILKAL 269
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: 32,972,055
Number of extensions: 878275
Number of successful extensions: 3721
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 3686
Number of HSP's successfully gapped: 4
Length of query: 290
Length of database: 18,297,164
Length adjustment: 102
Effective length of query: 188
Effective length of database: 14,934,836
Effective search space: 2807749168
Effective search space used: 2807749168
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-009423
(871 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_Chr13 323 9e-86
>Sscrofa_Chr13
|| Length = 218635234
Score = 323 bits (163), Expect = 9e-86
Identities = 166/167 (99%)
Strand = Plus / Plus
Query: 283 gttcagccaatgctacccctgaatttgaaggtcgaggaggtgatgagcttggcacggaga 342
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31071695 gttcagccaatgctacccctgaatttgaaggtcgaggaggtgatgagcttggcacggaga 31071754
Query: 343 ttgctaacaccctttaccggatatttaacaacaagggcagcatcgacctgaagtccctgt 402
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31071755 ttgctaacaccctttaccggatatttaacaacaagggcagcatcgacctgaagtccctgt 31071814
Query: 403 gcatcagtactcgggagcactgctggattctctacgtggacgtgctg 449
|||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 31071815 gcatcagtcctcgggagcactgctggattctctacgtggacgtgctg 31071861
Score = 303 bits (153), Expect = 8e-80
Identities = 156/157 (99%)
Strand = Plus / Plus
Query: 643 agatcggctatcggcacgtggtggatgctactcttcaggaggaggcctgctccttggcca 702
|||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31079889 agattggctatcggcacgtggtggatgctactcttcaggaggaggcctgctccttggcca 31079948
Query: 703 gcttgctggtggccgtgaccagcaagggagtcgtgacgtgcatgcggaaagtggggaagg 762
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31079949 gcttgctggtggccgtgaccagcaagggagtcgtgacgtgcatgcggaaagtggggaagg 31080008
Query: 763 gcagcctggacccagagagcatcttcgagatgatgga 799
|||||||||||||||||||||||||||||||||||||
Sbjct: 31080009 gcagcctggacccagagagcatcttcgagatgatgga 31080045
Score = 250 bits (126), Expect = 1e-63
Identities = 126/126 (100%)
Strand = Plus / Plus
Query: 519 aggataccgagagttcgtgttctggaagatgaagaggggtcaaaggacattgaactgagc 578
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31078715 aggataccgagagttcgtgttctggaagatgaagaggggtcaaaggacattgaactgagc 31078774
Query: 579 gatgacccttatgactgcatccagctaaatgtggagaatgtcccctgtattgtcacccta 638
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31078775 gatgacccttatgactgcatccagctaaatgtggagaatgtcccctgtattgtcacccta 31078834
Query: 639 tgcaag 644
||||||
Sbjct: 31078835 tgcaag 31078840
Score = 212 bits (107), Expect = 2e-52
Identities = 107/107 (100%)
Strand = Plus / Plus
Query: 83 tcaggaagaccttcgcgtggatggccgtggctgtgaggactatcgatgtgtcgaagtgga 142
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31063977 tcaggaagaccttcgcgtggatggccgtggctgtgaggactatcgatgtgtcgaagtgga 31064036
Query: 143 aaccgacgtggtgtccaacaccagtgggtctgccagggtcaagctgg 189
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31064037 aaccgacgtggtgtccaacaccagtgggtctgccagggtcaagctgg 31064083
Score = 192 bits (97), Expect = 2e-46
Identities = 100/101 (99%)
Strand = Plus / Plus
Query: 188 gggtcacacagacatcttggtgggagtgaaagcagaaatggggacgccgaagctggagaa 247
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31064378 gggtcacacagacatcttggtgggagtgaaagcagaaatggggacgccgaagctggagaa 31064437
Query: 248 accaaacgaaggttacttggagttttttgttgactgttcag 288
|||||||||||||||||||||||||||||||||||| ||||
Sbjct: 31064438 accaaacgaaggttacttggagttttttgttgactggtcag 31064478
Score = 172 bits (87), Expect = 2e-40
Identities = 87/87 (100%)
Strand = Plus / Plus
Query: 1 gacgtgaggcggcggggcagctcggcaacatggcgtctgtggctctaagtgaggcggaga 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31054760 gacgtgaggcggcggggcagctcggcaacatggcgtctgtggctctaagtgaggcggaga 31054819
Query: 61 aggtgtacatcgtgcatggtgttcagg 87
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Sbjct: 31054820 aggtgtacatcgtgcatggtgttcagg 31054846
Score = 145 bits (73), Expect = 5e-32
Identities = 73/73 (100%)
Strand = Plus / Plus
Query: 449 gctgctagaatgtggtggaaatttgtttgatgccatatccattgctgtaaaggctgcgct 508
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Sbjct: 31074262 gctgctagaatgtggtggaaatttgtttgatgccatatccattgctgtaaaggctgcgct 31074321
Query: 509 cttcaataccagg 521
|||||||||||||
Sbjct: 31074322 cttcaataccagg 31074334
Score = 133 bits (67), Expect = 2e-28
Identities = 70/71 (98%)
Strand = Plus / Plus
Query: 801 actggcaagcgtgtgggcaaggtgctgcacacctccctgcagagtcttctacacaaggaa 860
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Sbjct: 31083902 actggcaagcgtgtgggcaaggtgctgcacacctccctgcagagtcttctacacaaggag 31083961
Query: 861 gaaagcctggg 871
|||||||||||
Sbjct: 31083962 gaaagcctggg 31083972
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: 22,774,975
Number of extensions: 98
Number of successful extensions: 98
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 98
Number of HSP's successfully gapped: 8
Length of query: 871
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 850
Effective length of database: 2,808,413,156
Effective search space: 2387151182600
Effective search space used: 2387151182600
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)