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-008051
(1306 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_001069085.1| U3 small nucleolar ribonucleoprotein protein... 543 e-154
Alignment gi|NP_001076886.1| ribosome production factor 1 [Bos taurus]. 126 5e-29
>ref|NP_001069085.1| U3 small nucleolar ribonucleoprotein protein IMP4 [Bos taurus].
Length = 291
Score = 543 bits (1399), Expect = e-154
Identities = 265/270 (98%), Positives = 269/270 (99%)
Frame = +2
Query: 383 QRTAQERKDKVRRALEENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVE 562
+RTAQERKDKVRRALEENRLIPTELRREALALQGSLEFDDAGGEGVTNH+DDEYRWAGVE
Sbjct: 22 ERTAQERKDKVRRALEENRLIPTELRREALALQGSLEFDDAGGEGVTNHVDDEYRWAGVE 81
Query: 563 DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 742
DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE
Sbjct: 82 DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 141
Query: 743 HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSD 922
HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSD
Sbjct: 142 HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSD 201
Query: 923 ILRYLFPVPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLG 1102
ILRYLFPVPKDDSRRVITFANQDDYISFRHHVYKKT+HRNVELTEVGPRFE+KLYMIRLG
Sbjct: 202 ILRYLFPVPKDDSRRVITFANQDDYISFRHHVYKKTNHRNVELTEVGPRFELKLYMIRLG 261
Query: 1103 TLEQEATADVEWRWHPYTNTAHKRVFPSAE 1192
TLEQEATADVEWRWHPYTNTAHKRVF SAE
Sbjct: 262 TLEQEATADVEWRWHPYTNTAHKRVFLSAE 291
>ref|NP_001076886.1| ribosome production factor 1 [Bos taurus].
Length = 349
Score = 126 bits (316), Expect = 5e-29
Identities = 75/207 (36%), Positives = 113/207 (54%), Gaps = 2/207 (0%)
Frame = +2
Query: 566 PKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEH 745
PK++ITTS P R ++L V P + R + ++ C + TDL+V++E
Sbjct: 142 PKILITTSDRPHGRTVRLCEQLSTVIPNSHVYYRRGLALKKIIPQCISRDFTDLIVINED 201
Query: 746 RGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLG-TASEAKPHLIMHGFSSRLGKRVSD 922
R P GLI+SHLP GPTA+F + +V +R +I G +E P +I++ F++RLG +
Sbjct: 202 RKIPNGLILSHLPNGPTAHFKMSSVRLRKEIKRRGKDPTEHIPEIILNNFTTRLGHSIGR 261
Query: 923 ILRYLFP-VPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRL 1099
+ LFP P+ R+V TF NQ DYI FR H Y + V + E+GPRF +KL ++
Sbjct: 262 MFASLFPHNPQFIGRQVATFHNQRDYIFFRFHRYIFKSEKKVGIQELGPRFTLKLRSLQK 321
Query: 1100 GTLEQEATADVEWRWHPYTNTAHKRVF 1180
GT + + + EW P +R F
Sbjct: 322 GTFDSK-YGEYEWVHKPREMDTSRRKF 347
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: 52,973,261
Number of extensions: 1633384
Number of successful extensions: 7682
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 7610
Number of HSP's successfully gapped: 2
Length of query: 435
Length of database: 17,681,374
Length adjustment: 105
Effective length of query: 330
Effective length of database: 14,207,134
Effective search space: 4688354220
Effective search space used: 4688354220
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 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-008051
(1306 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_534545.2| PREDICTED: similar to IMP4, U3 small nucleolar ... 530 e-150
Alignment gi|XP_537096.1| PREDICTED: similar to RNA processing factor 1 [... 126 5e-29
>ref|XP_534545.2| PREDICTED: similar to IMP4, U3 small nucleolar ribonucleoprotein,
homolog [Canis familiaris].
Length = 339
Score = 530 bits (1364), Expect = e-150
Identities = 258/270 (95%), Positives = 263/270 (97%)
Frame = +2
Query: 383 QRTAQERKDKVRRALEENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVE 562
QR AQERKDKVRRAL+ENRLIPTELRREALALQGSLEFDDAGGEGVT+H DDEYRWAGVE
Sbjct: 70 QRAAQERKDKVRRALQENRLIPTELRREALALQGSLEFDDAGGEGVTDHTDDEYRWAGVE 129
Query: 563 DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 742
DPK+MITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE
Sbjct: 130 DPKIMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 189
Query: 743 HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSD 922
HRGTPVG IVSHLPFGPTAYFTLCNVVMRHDIPDLGT SEAKPHLIMHGFSSRLGKRVSD
Sbjct: 190 HRGTPVGFIVSHLPFGPTAYFTLCNVVMRHDIPDLGTMSEAKPHLIMHGFSSRLGKRVSD 249
Query: 923 ILRYLFPVPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLG 1102
ILRYLFPVPKDDS RVITFANQDDYISFRHHVYKKT+HRNVELTEVGPRFE+KLYMIRLG
Sbjct: 250 ILRYLFPVPKDDSHRVITFANQDDYISFRHHVYKKTNHRNVELTEVGPRFELKLYMIRLG 309
Query: 1103 TLEQEATADVEWRWHPYTNTAHKRVFPSAE 1192
TLEQEATADVEWRWHPYTNTA KRVF SAE
Sbjct: 310 TLEQEATADVEWRWHPYTNTARKRVFLSAE 339
>ref|XP_537096.1| PREDICTED: similar to RNA processing factor 1 [Canis familiaris].
Length = 349
Score = 126 bits (316), Expect = 5e-29
Identities = 75/207 (36%), Positives = 113/207 (54%), Gaps = 2/207 (0%)
Frame = +2
Query: 566 PKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEH 745
PK++ITTS P R ++L V P + R + ++ C + TDL+V++E
Sbjct: 142 PKILITTSDRPHGRTVRLCEQLSTVIPNSHVYYRRGLALKKIIPQCISRDFTDLIVINED 201
Query: 746 RGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLG-TASEAKPHLIMHGFSSRLGKRVSD 922
R P GLI+SHLP GPTA+F + +V +R +I G +E P +I++ F++RLG +
Sbjct: 202 RKIPNGLILSHLPSGPTAHFKMSSVRLRKEIKRRGKDPTEHIPEVILNNFTTRLGHSIGR 261
Query: 923 ILRYLFP-VPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRL 1099
+ LFP P+ R+V TF NQ DYI FR H Y + V + E+GPRF +KL ++
Sbjct: 262 MFASLFPHNPQFIGRQVATFHNQRDYIFFRFHRYIFKSEKKVGIQELGPRFTLKLRSLQK 321
Query: 1100 GTLEQEATADVEWRWHPYTNTAHKRVF 1180
GT + + + EW P +R F
Sbjct: 322 GTFDSK-YGEYEWVHKPREMDTSRRKF 347
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: 55,295,102
Number of extensions: 1662791
Number of successful extensions: 7734
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 7675
Number of HSP's successfully gapped: 2
Length of query: 435
Length of database: 18,874,504
Length adjustment: 106
Effective length of query: 329
Effective length of database: 15,340,888
Effective search space: 5047152152
Effective search space used: 5047152152
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 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-008051
(1306 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_003133355.2| PREDICTED: u3 small nucleolar ribonucleoprot... 519 e-147
Alignment gi|XP_003361145.1| PREDICTED: u3 small nucleolar ribonucleoprot... 518 e-147
Alignment gi|XP_003361191.1| PREDICTED: ribosome production factor 1-like... 127 2e-29
>ref|XP_003133355.2| PREDICTED: u3 small nucleolar ribonucleoprotein protein IMP4-like
[Sus scrofa].
Length = 284
Score = 519 bits (1337), Expect = e-147
Identities = 253/254 (99%), Positives = 253/254 (99%)
Frame = +2
Query: 431 ENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVEDPKVMITTSRDPSSRL 610
ENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVEDPKVMITTSRDPSSRL
Sbjct: 31 ENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVEDPKVMITTSRDPSSRL 90
Query: 611 KMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEHRGTPVGLIVSHLPFG 790
KMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEHRGTPVGLIVSHLPFG
Sbjct: 91 KMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEHRGTPVGLIVSHLPFG 150
Query: 791 PTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSDILRYLFPVPKDDSRRV 970
PTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSDILRYLFPVPKDDSRRV
Sbjct: 151 PTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSDILRYLFPVPKDDSRRV 210
Query: 971 ITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLGTLEQEATADVEWRWHP 1150
ITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLGTLEQEATADVEWRWHP
Sbjct: 211 ITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLGTLEQEATADVEWRWHP 270
Query: 1151 YTNTAHKRVFPSAE 1192
YTNTAHKRVF SAE
Sbjct: 271 YTNTAHKRVFLSAE 284
>ref|XP_003361145.1| PREDICTED: u3 small nucleolar ribonucleoprotein protein IMP4-like
[Sus scrofa].
Length = 256
Score = 518 bits (1334), Expect = e-147
Identities = 252/254 (99%), Positives = 253/254 (99%)
Frame = +2
Query: 431 ENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVEDPKVMITTSRDPSSRL 610
+NRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVEDPKVMITTSRDPSSRL
Sbjct: 3 QNRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVEDPKVMITTSRDPSSRL 62
Query: 611 KMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEHRGTPVGLIVSHLPFG 790
KMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEHRGTPVGLIVSHLPFG
Sbjct: 63 KMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEHRGTPVGLIVSHLPFG 122
Query: 791 PTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSDILRYLFPVPKDDSRRV 970
PTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSDILRYLFPVPKDDSRRV
Sbjct: 123 PTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSDILRYLFPVPKDDSRRV 182
Query: 971 ITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLGTLEQEATADVEWRWHP 1150
ITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLGTLEQEATADVEWRWHP
Sbjct: 183 ITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLGTLEQEATADVEWRWHP 242
Query: 1151 YTNTAHKRVFPSAE 1192
YTNTAHKRVF SAE
Sbjct: 243 YTNTAHKRVFLSAE 256
>ref|XP_003361191.1| PREDICTED: ribosome production factor 1-like [Sus scrofa].
Length = 349
Score = 127 bits (318), Expect = 2e-29
Identities = 75/207 (36%), Positives = 113/207 (54%), Gaps = 2/207 (0%)
Frame = +2
Query: 566 PKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEH 745
PK++ITTS P R ++L V P + R + ++ C + TDL+V++E
Sbjct: 142 PKILITTSDRPHGRTVRLCEQLSTVIPNSHVYYRRGLALKKIIPQCISRDFTDLIVINED 201
Query: 746 RGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLG-TASEAKPHLIMHGFSSRLGKRVSD 922
R P GLI+SHLP GPTA+F + +V +R +I G +E P +I++ F++RLG +
Sbjct: 202 RKIPNGLILSHLPNGPTAHFKMSSVRLRKEIKRRGKDPTEHTPEIILNNFTTRLGHSIGR 261
Query: 923 ILRYLFP-VPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRL 1099
+ LFP P+ R+V TF NQ DYI FR H Y + V + E+GPRF +KL ++
Sbjct: 262 MFASLFPHNPQFIGRQVATFHNQRDYIFFRFHRYIFKSEKKVGIQELGPRFTLKLRSLQK 321
Query: 1100 GTLEQEATADVEWRWHPYTNTAHKRVF 1180
GT + + + EW P +R F
Sbjct: 322 GTFDSK-YGEYEWVHKPREMDTSRRKF 347
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: 34,455,809
Number of extensions: 1089123
Number of successful extensions: 4716
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 4674
Number of HSP's successfully gapped: 3
Length of query: 435
Length of database: 11,343,932
Length adjustment: 102
Effective length of query: 333
Effective length of database: 8,804,438
Effective search space: 2931877854
Effective search space used: 2931877854
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-008051
(1306 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_848716.2| U3 small nucleolar ribonucleoprotein protein IM... 525 e-149
Alignment gi|NP_081647.2| ribosome production factor 1 isoform 2 [Mus mus... 129 4e-30
>ref|NP_848716.2| U3 small nucleolar ribonucleoprotein protein IMP4 [Mus musculus].
Length = 291
Score = 525 bits (1353), Expect = e-149
Identities = 255/270 (94%), Positives = 264/270 (97%)
Frame = +2
Query: 383 QRTAQERKDKVRRALEENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVE 562
QR+ QE+K++V+RALEEN+LIPTELRREALALQGSLEFDDAGGEGVT+H+DDEYRWAGVE
Sbjct: 22 QRSVQEKKERVKRALEENQLIPTELRREALALQGSLEFDDAGGEGVTSHVDDEYRWAGVE 81
Query: 563 DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 742
DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE
Sbjct: 82 DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 141
Query: 743 HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSD 922
HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGT SEAKPHLI HGFSSRLGKRVSD
Sbjct: 142 HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTMSEAKPHLITHGFSSRLGKRVSD 201
Query: 923 ILRYLFPVPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLG 1102
ILRYLFPVPKDDS RVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFE+KLYMIRLG
Sbjct: 202 ILRYLFPVPKDDSHRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFELKLYMIRLG 261
Query: 1103 TLEQEATADVEWRWHPYTNTAHKRVFPSAE 1192
TLEQEATADVEWRWHPYTNTA KRVF SAE
Sbjct: 262 TLEQEATADVEWRWHPYTNTARKRVFLSAE 291
>ref|NP_081647.2| ribosome production factor 1 isoform 2 [Mus musculus].
Length = 349
Score = 129 bits (325), Expect = 4e-30
Identities = 77/207 (37%), Positives = 114/207 (55%), Gaps = 2/207 (0%)
Frame = +2
Query: 566 PKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEH 745
PK++ITTS P R ++L V P + R + ++ C A TDL+V++E
Sbjct: 142 PKILITTSDRPHGRTVRLCEQLSTVIPDSHVYYRRGLALKKIIPQCIARDFTDLIVINED 201
Query: 746 RGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLG-TASEAKPHLIMHGFSSRLGKRVSD 922
R TP GLI+SHLP GPTA+F + +V +R +I G +E P +I++ F++RLG +
Sbjct: 202 RKTPNGLILSHLPNGPTAHFKMSSVRLRKEIKRRGKDPTEHVPEIILNNFTTRLGHSIGR 261
Query: 923 ILRYLFP-VPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRL 1099
+ LFP P+ R+V TF NQ DYI FR H Y + V + E+GPRF +KL ++
Sbjct: 262 MFASLFPHNPQFIGRQVATFHNQRDYIFFRFHRYIFKSEKKVGIQELGPRFTLKLRSLQK 321
Query: 1100 GTLEQEATADVEWRWHPYTNTAHKRVF 1180
GT + + + EW P +R F
Sbjct: 322 GTFDSK-YGEYEWVHKPREMDTSRRKF 347
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: 45,553,995
Number of extensions: 1338429
Number of successful extensions: 5949
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 5875
Number of HSP's successfully gapped: 2
Length of query: 435
Length of database: 15,617,559
Length adjustment: 104
Effective length of query: 331
Effective length of database: 12,493,815
Effective search space: 4135452765
Effective search space used: 4135452765
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-008051
(1306 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_219484.1| U3 small nucleolar ribonucleoprotein protein IM... 528 e-150
Alignment gi|NP_079341.2| ribosome production factor 1 [Homo sapiens]. 129 5e-30
>ref|NP_219484.1| U3 small nucleolar ribonucleoprotein protein IMP4 [Homo sapiens].
Length = 291
Score = 528 bits (1360), Expect = e-150
Identities = 257/270 (95%), Positives = 264/270 (97%)
Frame = +2
Query: 383 QRTAQERKDKVRRALEENRLIPTELRREALALQGSLEFDDAGGEGVTNHMDDEYRWAGVE 562
QR+AQERK+++RRALEENRLIPTELRREALALQGSLEFDDAGGEGVT+H+DDEYRWAGVE
Sbjct: 22 QRSAQERKERLRRALEENRLIPTELRREALALQGSLEFDDAGGEGVTSHVDDEYRWAGVE 81
Query: 563 DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 742
DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE
Sbjct: 82 DPKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHE 141
Query: 743 HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTASEAKPHLIMHGFSSRLGKRVSD 922
HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGT SEAKPHLI HGFSSRLGKRVSD
Sbjct: 142 HRGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLGTMSEAKPHLITHGFSSRLGKRVSD 201
Query: 923 ILRYLFPVPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRLG 1102
ILRYLFPVPKDDS RVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFE+KLYMIRLG
Sbjct: 202 ILRYLFPVPKDDSHRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFELKLYMIRLG 261
Query: 1103 TLEQEATADVEWRWHPYTNTAHKRVFPSAE 1192
TLEQEATADVEWRWHPYTNTA KRVF S E
Sbjct: 262 TLEQEATADVEWRWHPYTNTARKRVFLSTE 291
>ref|NP_079341.2| ribosome production factor 1 [Homo sapiens].
Length = 349
Score = 129 bits (325), Expect = 5e-30
Identities = 77/207 (37%), Positives = 114/207 (55%), Gaps = 2/207 (0%)
Frame = +2
Query: 566 PKVMITTSRDPSSRLKMFAKELKLVFPGAQRMNRGRHEVGALVRACKANGVTDLLVVHEH 745
PK++ITTS P R ++L V P + R + ++ C A TDL+V++E
Sbjct: 142 PKILITTSDRPHGRTVRLCEQLSTVIPNSHVYYRRGLALKKIIPQCIARDFTDLIVINED 201
Query: 746 RGTPVGLIVSHLPFGPTAYFTLCNVVMRHDIPDLG-TASEAKPHLIMHGFSSRLGKRVSD 922
R TP GLI+SHLP GPTA+F + +V +R +I G +E P +I++ F++RLG +
Sbjct: 202 RKTPNGLILSHLPNGPTAHFKMSSVRLRKEIKRRGKDPTEHIPEIILNNFTTRLGHSIGR 261
Query: 923 ILRYLFP-VPKDDSRRVITFANQDDYISFRHHVYKKTDHRNVELTEVGPRFEMKLYMIRL 1099
+ LFP P+ R+V TF NQ DYI FR H Y + V + E+GPRF +KL ++
Sbjct: 262 MFASLFPHNPQFIGRQVATFHNQRDYIFFRFHRYIFRSEKKVGIQELGPRFTLKLRSLQK 321
Query: 1100 GTLEQEATADVEWRWHPYTNTAHKRVF 1180
GT + + + EW P +R F
Sbjct: 322 GTFDSK-YGEYEWVHKPREMDTSRRKF 347
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: 54,095,700
Number of extensions: 1614887
Number of successful extensions: 7247
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 7177
Number of HSP's successfully gapped: 2
Length of query: 435
Length of database: 18,297,164
Length adjustment: 106
Effective length of query: 329
Effective length of database: 14,802,980
Effective search space: 4870180420
Effective search space used: 4870180420
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 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-008051
(1306 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL893609.2| Sus scrofa unplaced genomic scaffold ChrUScaf1494 313 1e-82
Sscrofa_Chr15 313 1e-82
>gb|GL893609.2| Sus scrofa unplaced genomic scaffold ChrUScaf1494
Length = 92479
Score = 313 bits (158), Expect = 1e-82
Identities = 158/158 (100%)
Strand = Plus / Minus
Query: 758 gtggggctcattgtcagccacctgccctttggcccaactgcgtacttcacactgtgcaac 817
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15717 gtggggctcattgtcagccacctgccctttggcccaactgcgtacttcacactgtgcaac 15658
Query: 818 gtggttatgcggcatgacatccccgacctgggcaccgcgtcagaggccaagcctcacctc 877
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15657 gtggttatgcggcatgacatccccgacctgggcaccgcgtcagaggccaagcctcacctc 15598
Query: 878 atcatgcatggcttttcctcccgcctgggtaagcgggt 915
||||||||||||||||||||||||||||||||||||||
Sbjct: 15597 atcatgcatggcttttcctcccgcctgggtaagcgggt 15560
Score = 303 bits (153), Expect = 1e-79
Identities = 178/185 (96%), Gaps = 1/185 (0%)
Strand = Plus / Minus
Query: 1083 tgtacatgatccgcttgggcacgctggaacaggaggccacagcagacgtggagtggcgct 1142
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15113 tgtacatgatccgcttgggcacgctggaacaggaggccacagcagacgtggagtggcgct 15054
Query: 1143 ggcacccctacaccaacactgcacacaagagggtctttcctagcgctgagtgagcctcct 1202
||||||||||||||||||||||||||||||||||||| | |||||||||||||||||||
Sbjct: 15053 ggcacccctacaccaacactgcacacaagagggtcttcctaagcgctgagtgagcctcct 14994
Query: 1203 caccggtcagaacatggacttgatcgccga-ctgggagctggggaggaatgagaataaac 1261
||||||||||||||||||| |||||||||| ||||||||||||||||| ||||||||||
Sbjct: 14993 caccggtcagaacatggacctgatcgccgacctgggagctggggaggagtgagaataaaa 14934
Query: 1262 cctga 1266
|||||
Sbjct: 14933 cctga 14929
Score = 278 bits (140), Expect = 7e-72
Identities = 140/140 (100%)
Strand = Plus / Minus
Query: 183 aattttgggcattctcgacagcagaggagtctagtgaagcttcttgtgaccttatcggtt 242
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18769 aattttgggcattctcgacagcagaggagtctagtgaagcttcttgtgaccttatcggtt 18710
Query: 243 gagggcggaagcgagggctgcgttgcgtgggcggtgacggaggattctcctggacccgcg 302
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 18709 gagggcggaagcgagggctgcgttgcgtgggcggtgacggaggattctcctggacccgcg 18650
Query: 303 tggaagccgctctcaggatg 322
||||||||||||||||||||
Sbjct: 18649 tggaagccgctctcaggatg 18630
Score = 268 bits (135), Expect = 7e-69
Identities = 135/135 (100%)
Strand = Plus / Minus
Query: 624 aggagctgaaattggtgttcccgggcgcccagcgcatgaaccgaggccggcacgaggtcg 683
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15940 aggagctgaaattggtgttcccgggcgcccagcgcatgaaccgaggccggcacgaggtcg 15881
Query: 684 gggcgctggtgcgagcctgcaaagccaatggggtcactgacctgctggttgtccatgagc 743
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15880 gggcgctggtgcgagcctgcaaagccaatggggtcactgacctgctggttgtccatgagc 15821
Query: 744 atcgaggcacacctg 758
|||||||||||||||
Sbjct: 15820 atcgaggcacacctg 15806
Score = 224 bits (113), Expect = 9e-56
Identities = 113/113 (100%)
Strand = Plus / Minus
Query: 514 aggtgtcaccaaccatatggatgatgagtatcgatgggcaggggtcgaggatcccaaagt 573
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 16128 aggtgtcaccaaccatatggatgatgagtatcgatgggcaggggtcgaggatcccaaagt 16069
Query: 574 catgatcactacctctcgagatcccagttcccgcctcaagatgtttgcaaagg 626
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 16068 catgatcactacctctcgagatcccagttcccgcctcaagatgtttgcaaagg 16016
Score = 210 bits (106), Expect = 1e-51
Identities = 106/106 (100%)
Strand = Plus / Minus
Query: 80 gtgtgggtgattccgagtcacttctggaagcggctacttaggacgttgcagtgactgtgg 139
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 19199 gtgtgggtgattccgagtcacttctggaagcggctacttaggacgttgcagtgactgtgg 19140
Query: 140 aaggaggcgtggctgttctgcaaccctcggaggagcggctttaaat 185
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 19139 aaggaggcgtggctgttctgcaaccctcggaggagcggctttaaat 19094
Score = 192 bits (97), Expect = 3e-46
Identities = 97/97 (100%)
Strand = Plus / Minus
Query: 913 ggtctctgacatcctccgctacctattccctgtgcccaaagatgacagccgccgggtcat 972
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15479 ggtctctgacatcctccgctacctattccctgtgcccaaagatgacagccgccgggtcat 15420
Query: 973 caccttcgccaaccaggatgactacatctccttccgg 1009
|||||||||||||||||||||||||||||||||||||
Sbjct: 15419 caccttcgccaaccaggatgactacatctccttccgg 15383
Score = 176 bits (89), Expect = 2e-41
Identities = 89/89 (100%)
Strand = Plus / Minus
Query: 430 agagaaccgcctcattcccacggagttacgcagagaggctctggccttacagggatccct 489
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 16924 agagaaccgcctcattcccacggagttacgcagagaggctctggccttacagggatccct 16865
Query: 490 ggagtttgatgatgccggtggtgaaggtg 518
|||||||||||||||||||||||||||||
Sbjct: 16864 ggagtttgatgatgccggtggtgaaggtg 16836
Score = 149 bits (75), Expect = 4e-33
Identities = 75/75 (100%)
Strand = Plus / Minus
Query: 1008 ggcaccatgtgtataagaagactgaccaccgcaacgtggagctgactgaggtcgggcctc 1067
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15266 ggcaccatgtgtataagaagactgaccaccgcaacgtggagctgactgaggtcgggcctc 15207
Query: 1068 gctttgagatgaagt 1082
|||||||||||||||
Sbjct: 15206 gctttgagatgaagt 15192
Score = 75.8 bits (38), Expect = 5e-11
Identities = 38/38 (100%)
Strand = Plus / Minus
Query: 322 gctgcgccgcgaggcccgccttcgccgggagtacctgt 359
||||||||||||||||||||||||||||||||||||||
Sbjct: 18473 gctgcgccgcgaggcccgccttcgccgggagtacctgt 18436
>Sscrofa_Chr15
|| Length = 157681621
Score = 313 bits (158), Expect = 1e-82
Identities = 158/158 (100%)
Strand = Plus / Minus
Query: 758 gtggggctcattgtcagccacctgccctttggcccaactgcgtacttcacactgtgcaac 817
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35797876 gtggggctcattgtcagccacctgccctttggcccaactgcgtacttcacactgtgcaac 35797817
Query: 818 gtggttatgcggcatgacatccccgacctgggcaccgcgtcagaggccaagcctcacctc 877
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35797816 gtggttatgcggcatgacatccccgacctgggcaccgcgtcagaggccaagcctcacctc 35797757
Query: 878 atcatgcatggcttttcctcccgcctgggtaagcgggt 915
||||||||||||||||||||||||||||||||||||||
Sbjct: 35797756 atcatgcatggcttttcctcccgcctgggtaagcgggt 35797719
Score = 303 bits (153), Expect = 1e-79
Identities = 178/185 (96%), Gaps = 1/185 (0%)
Strand = Plus / Minus
Query: 1083 tgtacatgatccgcttgggcacgctggaacaggaggccacagcagacgtggagtggcgct 1142
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35797272 tgtacatgatccgcttgggcacgctggaacaggaggccacagcagacgtggagtggcgct 35797213
Query: 1143 ggcacccctacaccaacactgcacacaagagggtctttcctagcgctgagtgagcctcct 1202
||||||||||||||||||||||||||||||||||||| | |||||||||||||||||||
Sbjct: 35797212 ggcacccctacaccaacactgcacacaagagggtcttcctaagcgctgagtgagcctcct 35797153
Query: 1203 caccggtcagaacatggacttgatcgccga-ctgggagctggggaggaatgagaataaac 1261
||||||||||||||||||| |||||||||| ||||||||||||||||| ||||||||||
Sbjct: 35797152 caccggtcagaacatggacctgatcgccgacctgggagctggggaggagtgagaataaaa 35797093
Query: 1262 cctga 1266
|||||
Sbjct: 35797092 cctga 35797088
Score = 268 bits (135), Expect = 7e-69
Identities = 135/135 (100%)
Strand = Plus / Minus
Query: 624 aggagctgaaattggtgttcccgggcgcccagcgcatgaaccgaggccggcacgaggtcg 683
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35798095 aggagctgaaattggtgttcccgggcgcccagcgcatgaaccgaggccggcacgaggtcg 35798036
Query: 684 gggcgctggtgcgagcctgcaaagccaatggggtcactgacctgctggttgtccatgagc 743
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35798035 gggcgctggtgcgagcctgcaaagccaatggggtcactgacctgctggttgtccatgagc 35797976
Query: 744 atcgaggcacacctg 758
|||||||||||||||
Sbjct: 35797975 atcgaggcacacctg 35797961
Score = 224 bits (113), Expect = 9e-56
Identities = 113/113 (100%)
Strand = Plus / Minus
Query: 514 aggtgtcaccaaccatatggatgatgagtatcgatgggcaggggtcgaggatcccaaagt 573
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35798283 aggtgtcaccaaccatatggatgatgagtatcgatgggcaggggtcgaggatcccaaagt 35798224
Query: 574 catgatcactacctctcgagatcccagttcccgcctcaagatgtttgcaaagg 626
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35798223 catgatcactacctctcgagatcccagttcccgcctcaagatgtttgcaaagg 35798171
Score = 192 bits (97), Expect = 3e-46
Identities = 97/97 (100%)
Strand = Plus / Minus
Query: 913 ggtctctgacatcctccgctacctattccctgtgcccaaagatgacagccgccgggtcat 972
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35797638 ggtctctgacatcctccgctacctattccctgtgcccaaagatgacagccgccgggtcat 35797579
Query: 973 caccttcgccaaccaggatgactacatctccttccgg 1009
|||||||||||||||||||||||||||||||||||||
Sbjct: 35797578 caccttcgccaaccaggatgactacatctccttccgg 35797542
Score = 176 bits (89), Expect = 2e-41
Identities = 89/89 (100%)
Strand = Plus / Minus
Query: 430 agagaaccgcctcattcccacggagttacgcagagaggctctggccttacagggatccct 489
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35799079 agagaaccgcctcattcccacggagttacgcagagaggctctggccttacagggatccct 35799020
Query: 490 ggagtttgatgatgccggtggtgaaggtg 518
|||||||||||||||||||||||||||||
Sbjct: 35799019 ggagtttgatgatgccggtggtgaaggtg 35798991
Score = 149 bits (75), Expect = 4e-33
Identities = 75/75 (100%)
Strand = Plus / Minus
Query: 1008 ggcaccatgtgtataagaagactgaccaccgcaacgtggagctgactgaggtcgggcctc 1067
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35797425 ggcaccatgtgtataagaagactgaccaccgcaacgtggagctgactgaggtcgggcctc 35797366
Query: 1068 gctttgagatgaagt 1082
|||||||||||||||
Sbjct: 35797365 gctttgagatgaagt 35797351
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: 28,915,630
Number of extensions: 110
Number of successful extensions: 110
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 108
Number of HSP's successfully gapped: 17
Length of query: 1306
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1285
Effective length of database: 2,808,413,156
Effective search space: 3608810905460
Effective search space used: 3608810905460
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)