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-008297
(1003 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_001099092.1| DNA-directed RNA polymerase I subunit RPA43 ... 416 e-119
>ref|NP_001099092.1| DNA-directed RNA polymerase I subunit RPA43 [Bos taurus].
Length = 331
Score = 416 bits (1069), Expect(2) = e-119
Identities = 208/272 (76%), Positives = 222/272 (81%)
Frame = +2
Query: 59 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 238
MAAGCS A RPKAASEGP AGVLPCLELPTYAAACALV+SRYSCLVAGPHRRHIALS
Sbjct: 1 MAAGCSVAPRPKAASEGP----AGVLPCLELPTYAAACALVNSRYSCLVAGPHRRHIALS 56
Query: 239 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 418
PRYLN+KRTGIREQL+AELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF
Sbjct: 57 PRYLNKKRTGIREQLNAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 116
Query: 419 VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE 598
VIFCPEPGQKLMGT+NKVSSSHIGCLVHGCFNASIPKPEQMPA+QWQTL+INVGDELEFE
Sbjct: 117 VIFCPEPGQKLMGTVNKVSSSHIGCLVHGCFNASIPKPEQMPADQWQTLQINVGDELEFE 176
Query: 599 VFRLDSDAAGVFCIRGKVNVSSLQTKCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC 778
VFRLDSDAAGVFCIRGK++++SLQTKC C
Sbjct: 177 VFRLDSDAAGVFCIRGKLSIASLQTKCSAVPEEAPETGADEPVEKPPKKKKKKKKDREPC 236
Query: 779 EAEDGTTELTDFVDVTIKEETDSQINNIVNGL 874
E E G TE DF +V K+E D ++N VNGL
Sbjct: 237 EVEGGATEPEDFAEVATKDEADLHVSNSVNGL 268
Score = 31.2 bits (69), Expect(2) = e-119
Identities = 14/21 (66%), Positives = 15/21 (71%)
Frame = +1
Query: 940 PCFSGSDSSGYQVTLKRKKKK 1002
P F GSDSSGYQ +KKKK
Sbjct: 289 PVFQGSDSSGYQSDHTKKKKK 309
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: 31,328,260
Number of extensions: 734187
Number of successful extensions: 2798
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2782
Number of HSP's successfully gapped: 2
Length of query: 334
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 231
Effective length of database: 14,273,310
Effective search space: 3297134610
Effective search space used: 3297134610
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-008297
(1003 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_853598.1| PREDICTED: similar to TWIST neighbor [Canis fam... 385 e-107
>ref|XP_853598.1| PREDICTED: similar to TWIST neighbor [Canis familiaris].
Length = 423
Score = 385 bits (988), Expect = e-107
Identities = 200/271 (73%), Positives = 212/271 (78%)
Frame = +2
Query: 62 AAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALSP 241
A+ + PKAASEGP AGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALSP
Sbjct: 84 ASAVGASPPPKAASEGP----AGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALSP 139
Query: 242 RYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADFV 421
RYL+RKRTGIREQLDAELLRYSESL GVPIAYDNIKVVGELGDIYDDQGHIHLNIEADFV
Sbjct: 140 RYLHRKRTGIREQLDAELLRYSESLSGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADFV 199
Query: 422 IFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFEV 601
IFCPEPG+KLMG +NKVSSSHIGCLVHGCFNASIPKPEQM EQWQ LEINVGDELEFEV
Sbjct: 200 IFCPEPGKKLMGIVNKVSSSHIGCLVHGCFNASIPKPEQMSTEQWQILEINVGDELEFEV 259
Query: 602 FRLDSDAAGVFCIRGKVNVSSLQTKCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCE 781
FRLDSDAAGVFCIRGK+N++SLQTKC E
Sbjct: 260 FRLDSDAAGVFCIRGKLNITSLQTKCSAVPEEITVTSTEEIIEKPLKKKKKKKDPESY-E 318
Query: 782 AEDGTTELTDFVDVTIKEETDSQINNIVNGL 874
E EL D D T+K+ETD QI+N +NGL
Sbjct: 319 VESDNRELADVTDATMKKETDPQIDN-MNGL 348
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: 32,584,304
Number of extensions: 755276
Number of successful extensions: 2880
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2874
Number of HSP's successfully gapped: 1
Length of query: 334
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 231
Effective length of database: 15,440,896
Effective search space: 3566846976
Effective search space used: 3566846976
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-008297
(1003 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_003357513.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed... 478 e-138
Alignment gi|NP_001230885.1| TWIST neighbor [Sus scrofa]. 478 e-138
Alignment gi|XP_003130244.2| PREDICTED: DNA-directed RNA polymerase I sub... 271 5e-73
>ref|XP_003357513.1| PREDICTED: LOW QUALITY PROTEIN: DNA-directed RNA polymerase I
subunit RPA43-like [Sus scrofa].
Length = 338
Score = 478 bits (1231), Expect(2) = e-138
Identities = 241/273 (88%), Positives = 241/273 (88%)
Frame = +2
Query: 59 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 238
MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS
Sbjct: 1 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 60
Query: 239 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 418
PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF
Sbjct: 61 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 120
Query: 419 VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE 598
VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE
Sbjct: 121 VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE 180
Query: 599 VFRLDSDAAGVFCIRGKVNVSSLQTKCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC 778
VFRLDSDAAGVFCIRGKVNVSSLQTKC C
Sbjct: 181 VFRLDSDAAGVFCIRGKVNVSSLQTKCPAIPEVTETATEEAAVEKPPKKKKKKKTDPEPC 240
Query: 779 EAEDGTTELTDFVDVTIKEETDSQINNIVNGLL 877
EAEDGTTELTDFVDVTIKEETDSQINNIVNGLL
Sbjct: 241 EAEDGTTELTDFVDVTIKEETDSQINNIVNGLL 273
Score = 33.5 bits (75), Expect(2) = e-138
Identities = 15/21 (71%), Positives = 16/21 (76%)
Frame = +1
Query: 940 PCFSGSDSSGYQVTLKRKKKK 1002
P F GSDSSGYQ K+KKKK
Sbjct: 295 PVFQGSDSSGYQSDHKKKKKK 315
>ref|NP_001230885.1| TWIST neighbor [Sus scrofa].
Length = 335
Score = 478 bits (1231), Expect(2) = e-138
Identities = 241/273 (88%), Positives = 241/273 (88%)
Frame = +2
Query: 59 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 238
MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS
Sbjct: 1 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 60
Query: 239 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 418
PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF
Sbjct: 61 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 120
Query: 419 VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE 598
VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE
Sbjct: 121 VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE 180
Query: 599 VFRLDSDAAGVFCIRGKVNVSSLQTKCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC 778
VFRLDSDAAGVFCIRGKVNVSSLQTKC C
Sbjct: 181 VFRLDSDAAGVFCIRGKVNVSSLQTKCPAIPEVTETATEEAAVEKPPKKKKKKKKDPEPC 240
Query: 779 EAEDGTTELTDFVDVTIKEETDSQINNIVNGLL 877
EAEDGTTELTDFVDVTIKEETDSQINNIVNGLL
Sbjct: 241 EAEDGTTELTDFVDVTIKEETDSQINNIVNGLL 273
Score = 33.5 bits (75), Expect(2) = e-138
Identities = 15/21 (71%), Positives = 16/21 (76%)
Frame = +1
Query: 940 PCFSGSDSSGYQVTLKRKKKK 1002
P F GSDSSGYQ K+KKKK
Sbjct: 295 PVFQGSDSSGYQSDHKKKKKK 315
>ref|XP_003130244.2| PREDICTED: DNA-directed RNA polymerase I subunit RPA43-like [Sus
scrofa].
Length = 166
Score = 271 bits (692), Expect = 5e-73
Identities = 132/132 (100%), Positives = 132/132 (100%)
Frame = +2
Query: 59 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 238
MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS
Sbjct: 1 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 60
Query: 239 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 418
PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF
Sbjct: 61 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 120
Query: 419 VIFCPEPGQKLM 454
VIFCPEPGQKLM
Sbjct: 121 VIFCPEPGQKLM 132
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: 20,158,812
Number of extensions: 470656
Number of successful extensions: 1809
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 1806
Number of HSP's successfully gapped: 5
Length of query: 334
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 235
Effective length of database: 8,879,129
Effective search space: 2086595315
Effective search space used: 2086595315
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-008297
(1003 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_758457.1| DNA-directed RNA polymerase I subunit RPA43 [Mu... 374 e-106
>ref|NP_758457.1| DNA-directed RNA polymerase I subunit RPA43 [Mus musculus].
Length = 330
Score = 374 bits (960), Expect(2) = e-106
Identities = 192/271 (70%), Positives = 209/271 (77%), Gaps = 1/271 (0%)
Frame = +2
Query: 59 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 238
MAAG E+ R +AASE P G AGVLPCLELP+YAAACALV SRYSCLVA PHRRHIALS
Sbjct: 1 MAAGSVESQRSQAASERPVAGQAGVLPCLELPSYAAACALVGSRYSCLVAAPHRRHIALS 60
Query: 239 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 418
PRYL+RKRTGIREQLDAELLRYSESLLGVPIAYDNI+VVGELGDIYDDQGHIHLNIEADF
Sbjct: 61 PRYLSRKRTGIREQLDAELLRYSESLLGVPIAYDNIRVVGELGDIYDDQGHIHLNIEADF 120
Query: 419 VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE 598
VIFCPEPGQ LMGT+NKVSSSHIGCLVHGCFNASIPKPEQM E+WQTLEI+VGDELEF+
Sbjct: 121 VIFCPEPGQTLMGTVNKVSSSHIGCLVHGCFNASIPKPEQMSYEEWQTLEIHVGDELEFD 180
Query: 599 VFRLDSDAAGVFCIRGKVNVSSLQTK-CXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX 775
VFRLDSD+AGVFCIRGK++ +SLQ K
Sbjct: 181 VFRLDSDSAGVFCIRGKLSTTSLQLKHSAVSEDVAETVVEEVVEKTPKKKKKKKDKDTDT 240
Query: 776 CEAEDGTTELTDFVDVTIKEETDSQINNIVN 868
C D TE+ D DVT +EETD ++ VN
Sbjct: 241 CGTVDSVTEVADVTDVTPQEETDIPCSDNVN 271
Score = 29.3 bits (64), Expect(2) = e-106
Identities = 13/21 (61%), Positives = 14/21 (66%)
Frame = +1
Query: 940 PCFSGSDSSGYQVTLKRKKKK 1002
P F SDSSGYQ +KKKK
Sbjct: 294 PIFQASDSSGYQSDHNKKKKK 314
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: 27,244,425
Number of extensions: 624078
Number of successful extensions: 2153
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2153
Number of HSP's successfully gapped: 3
Length of query: 334
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 232
Effective length of database: 12,553,887
Effective search space: 2912501784
Effective search space used: 2912501784
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-008297
(1003 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_001002926.1| DNA-directed RNA polymerase I subunit RPA43 ... 394 e-113
>ref|NP_001002926.1| DNA-directed RNA polymerase I subunit RPA43 [Homo sapiens].
Length = 338
Score = 394 bits (1012), Expect(2) = e-113
Identities = 202/272 (74%), Positives = 216/272 (79%)
Frame = +2
Query: 59 MAAGCSEASRPKAASEGPGVGPAGVLPCLELPTYAAACALVSSRYSCLVAGPHRRHIALS 238
MAAGCSEA RP AAS+G VG AGVLPCLELPTYAAACALV+SRYSCLVAGPH+RHIALS
Sbjct: 1 MAAGCSEAPRPAAASDGSLVGQAGVLPCLELPTYAAACALVNSRYSCLVAGPHQRHIALS 60
Query: 239 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 418
PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF
Sbjct: 61 PRYLNRKRTGIREQLDAELLRYSESLLGVPIAYDNIKVVGELGDIYDDQGHIHLNIEADF 120
Query: 419 VIFCPEPGQKLMGTINKVSSSHIGCLVHGCFNASIPKPEQMPAEQWQTLEINVGDELEFE 598
VIFCPEPGQKLMG +NKVSSSHIGCLVHGCFNASIPKPEQ+ AEQWQT+EIN+GDELEFE
Sbjct: 121 VIFCPEPGQKLMGIVNKVSSSHIGCLVHGCFNASIPKPEQLSAEQWQTMEINMGDELEFE 180
Query: 599 VFRLDSDAAGVFCIRGKVNVSSLQTKCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC 778
VFRLDSDAAGVFCIRGK+N++SLQ K
Sbjct: 181 VFRLDSDAAGVFCIRGKLNITSLQFK--RSEVSEEVTENGTEEAAKKPKKKKKKKDPETY 238
Query: 779 EAEDGTTELTDFVDVTIKEETDSQINNIVNGL 874
E + GTT+L D D T EE+ Q N NG+
Sbjct: 239 EVDSGTTKLADDADDTPMEESALQNTNNANGI 270
Score = 33.5 bits (75), Expect(2) = e-113
Identities = 15/21 (71%), Positives = 16/21 (76%)
Frame = +1
Query: 940 PCFSGSDSSGYQVTLKRKKKK 1002
P F GSDSSGYQ K+KKKK
Sbjct: 292 PVFQGSDSSGYQSDHKKKKKK 312
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: 32,033,551
Number of extensions: 740335
Number of successful extensions: 2749
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2748
Number of HSP's successfully gapped: 3
Length of query: 334
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 231
Effective length of database: 14,901,872
Effective search space: 3442332432
Effective search space used: 3442332432
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-008297
(1003 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_Chr09 609 e-171
>Sscrofa_Chr09
|| Length = 153670197
Score = 609 bits (307), Expect = e-171
Identities = 310/311 (99%)
Strand = Plus / Minus
Query: 2 taggcggttaatgactgcgtcagtaggacgcgcgccgtgggaagcctgacgagcctcatg 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97900157 taggcggttaatgactgcgtcagtaggacgcgcgccgtgggaagcctgacgagcctcatg 97900098
Query: 62 gctgcgggttgctcagaggcttcacggccaaaggcggcctcggaagggccgggggtggga 121
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97900097 gctgcgggttgctcagaggcttcacggccaaaggcggcctcggaagggccgggggtggga 97900038
Query: 122 ccggccggtgtcttgccttgcctagagctgccgacctatgcggccgcttgtgcgctggtg 181
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97900037 ccggccggtgtcttgccttgcctagagctgccgacctatgcggccgcttgtgcgctggtg 97899978
Query: 182 agcagccgctactcctgcctcgtggcggggccgcaccggagacacatcgcattgtcgccg 241
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97899977 agcagccgctactcctgcctcgtggcggggccgcaccggagacacatcgcattgtcgccg 97899918
Query: 242 cgctaccttaacaggaaacgcaccggtatccgagaacagctggatgcagaactcctgcgt 301
|||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 97899917 cgctaccttaacaggaaacgcaccggtatccgagaacagctggatgcagaactcctacgt 97899858
Query: 302 tattccgagag 312
|||||||||||
Sbjct: 97899857 tattccgagag 97899847
Score = 609 bits (307), Expect = e-171
Identities = 310/311 (99%)
Strand = Plus / Minus
Query: 2 taggcggttaatgactgcgtcagtaggacgcgcgccgtgggaagcctgacgagcctcatg 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98006833 taggcggttaatgactgcgtcagtaggacgcgcgccgtgggaagcctgacgagcctcatg 98006774
Query: 62 gctgcgggttgctcagaggcttcacggccaaaggcggcctcggaagggccgggggtggga 121
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98006773 gctgcgggttgctcagaggcttcacggccaaaggcggcctcggaagggccgggggtggga 98006714
Query: 122 ccggccggtgtcttgccttgcctagagctgccgacctatgcggccgcttgtgcgctggtg 181
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98006713 ccggccggtgtcttgccttgcctagagctgccgacctatgcggccgcttgtgcgctggtg 98006654
Query: 182 agcagccgctactcctgcctcgtggcggggccgcaccggagacacatcgcattgtcgccg 241
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98006653 agcagccgctactcctgcctcgtggcggggccgcaccggagacacatcgcattgtcgccg 98006594
Query: 242 cgctaccttaacaggaaacgcaccggtatccgagaacagctggatgcagaactcctgcgt 301
|||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 98006593 cgctaccttaacaggaaacgcaccggtatccgagaacagctggatgcagaactcctacgt 98006534
Query: 302 tattccgagag 312
|||||||||||
Sbjct: 98006533 tattccgagag 98006523
Score = 416 bits (210), Expect = e-114
Identities = 210/210 (100%)
Strand = Plus / Minus
Query: 454 gggtacaattaataaagtgtcttccagccatattggctgtttagtacatgggtgcttcaa 513
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97879538 gggtacaattaataaagtgtcttccagccatattggctgtttagtacatgggtgcttcaa 97879479
Query: 514 tgcctccattcctaaacccgagcagatgccagctgagcagtggcagactctggagataaa 573
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97879478 tgcctccattcctaaacccgagcagatgccagctgagcagtggcagactctggagataaa 97879419
Query: 574 tgtgggtgatgaactagaatttgaagtatttcgcttagactcagacgctgctggagtatt 633
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97879418 tgtgggtgatgaactagaatttgaagtatttcgcttagactcagacgctgctggagtatt 97879359
Query: 634 ctgcattcgtgggaaagtaaatgtttctag 663
||||||||||||||||||||||||||||||
Sbjct: 97879358 ctgcattcgtgggaaagtaaatgtttctag 97879329
Score = 416 bits (210), Expect = e-114
Identities = 210/210 (100%)
Strand = Plus / Minus
Query: 454 gggtacaattaataaagtgtcttccagccatattggctgtttagtacatgggtgcttcaa 513
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97986170 gggtacaattaataaagtgtcttccagccatattggctgtttagtacatgggtgcttcaa 97986111
Query: 514 tgcctccattcctaaacccgagcagatgccagctgagcagtggcagactctggagataaa 573
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97986110 tgcctccattcctaaacccgagcagatgccagctgagcagtggcagactctggagataaa 97986051
Query: 574 tgtgggtgatgaactagaatttgaagtatttcgcttagactcagacgctgctggagtatt 633
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97986050 tgtgggtgatgaactagaatttgaagtatttcgcttagactcagacgctgctggagtatt 97985991
Query: 634 ctgcattcgtgggaaagtaaatgtttctag 663
||||||||||||||||||||||||||||||
Sbjct: 97985990 ctgcattcgtgggaaagtaaatgtttctag 97985961
Score = 295 bits (149), Expect = 2e-77
Identities = 195/218 (89%)
Strand = Plus / Minus
Query: 661 tagtttacaaaccaaatgccctgctattcctgaagtaacagaaactgccaccgaagaagc 720
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97878025 tagtttacaaaccaaatgccctgctattcctgaagtaacagaaactgccaccgaagaagc 97877966
Query: 721 ggctgttgagaaacctccnnnnnnnnnnnnnnnnnnnnnnncagacccagagccatgtga 780
|||||||||||||||||| |||||||||||||||||||
Sbjct: 97877965 ggctgttgagaaacctccaaagaagaaaaagaaaaagaagacagacccagagccatgtga 97877906
Query: 781 agcagaagatggtaccacagagctaacagattttgttgatgttaccattaaggaagagac 840
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97877905 agcagaagatggtaccacagagctaacagattttgttgatgttaccattaaggaagagac 97877846
Query: 841 agatagccagattaataacattgtaaacggtctcttgg 878
||||||||||||||||||||||||||||||||||||||
Sbjct: 97877845 agatagccagattaataacattgtaaacggtctcttgg 97877808
Score = 295 bits (149), Expect = 2e-77
Identities = 195/218 (89%)
Strand = Plus / Minus
Query: 661 tagtttacaaaccaaatgccctgctattcctgaagtaacagaaactgccaccgaagaagc 720
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97984657 tagtttacaaaccaaatgccctgctattcctgaagtaacagaaactgccaccgaagaagc 97984598
Query: 721 ggctgttgagaaacctccnnnnnnnnnnnnnnnnnnnnnnncagacccagagccatgtga 780
|||||||||||||||||| |||||||||||||||||||
Sbjct: 97984597 ggctgttgagaaacctccaaagaagaaaaagaaaaagaagacagacccagagccatgtga 97984538
Query: 781 agcagaagatggtaccacagagctaacagattttgttgatgttaccattaaggaagagac 840
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97984537 agcagaagatggtaccacagagctaacagattttgttgatgttaccattaaggaagagac 97984478
Query: 841 agatagccagattaataacattgtaaacggtctcttgg 878
||||||||||||||||||||||||||||||||||||||
Sbjct: 97984477 agatagccagattaataacattgtaaacggtctcttgg 97984440
Score = 287 bits (145), Expect = 6e-75
Identities = 145/145 (100%)
Strand = Plus / Minus
Query: 311 agccttttaggtgtacccattgcctatgataacatcaaagtagtgggtgaactaggagat 370
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97893806 agccttttaggtgtacccattgcctatgataacatcaaagtagtgggtgaactaggagat 97893747
Query: 371 atttatgatgatcaaggacacattcatcttaacattgaagcagattttgttattttctgc 430
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 97893746 atttatgatgatcaaggacacattcatcttaacattgaagcagattttgttattttctgc 97893687
Query: 431 cctgaaccagggcaaaagcttatgg 455
|||||||||||||||||||||||||
Sbjct: 97893686 cctgaaccagggcaaaagcttatgg 97893662
Score = 287 bits (145), Expect = 6e-75
Identities = 145/145 (100%)
Strand = Plus / Minus
Query: 311 agccttttaggtgtacccattgcctatgataacatcaaagtagtgggtgaactaggagat 370
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98001207 agccttttaggtgtacccattgcctatgataacatcaaagtagtgggtgaactaggagat 98001148
Query: 371 atttatgatgatcaaggacacattcatcttaacattgaagcagattttgttattttctgc 430
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 98001147 atttatgatgatcaaggacacattcatcttaacattgaagcagattttgttattttctgc 98001088
Query: 431 cctgaaccagggcaaaagcttatgg 455
|||||||||||||||||||||||||
Sbjct: 98001087 cctgaaccagggcaaaagcttatgg 98001063
Score = 81.8 bits (41), Expect = 7e-13
Identities = 48/49 (97%), Gaps = 1/49 (2%)
Strand = Plus / Minus
Query: 928 tcaggaccaggaccctgtttttca-ggcagtgactccagtggttaccaa 975
|||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 97877758 tcaggaccaggaccctgtttttcaaggcagtgactccagtggttaccaa 97877710
Score = 81.8 bits (41), Expect = 7e-13
Identities = 48/49 (97%), Gaps = 1/49 (2%)
Strand = Plus / Minus
Query: 928 tcaggaccaggaccctgtttttca-ggcagtgactccagtggttaccaa 975
|||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 97984390 tcaggaccaggaccctgtttttcaaggcagtgactccagtggttaccaa 97984342
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: 23,685,896
Number of extensions: 115
Number of successful extensions: 115
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 12
Length of query: 1003
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 982
Effective length of database: 2,808,413,156
Effective search space: 2757861719192
Effective search space used: 2757861719192
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)