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-014013
(730 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_001039386.1| ribonuclease H2 subunit C [Bos taurus]. 259 2e-69
>ref|NP_001039386.1| ribonuclease H2 subunit C [Bos taurus].
Length = 165
Score = 259 bits (661), Expect = 2e-69
Identities = 127/167 (76%), Positives = 145/167 (86%)
Frame = +3
Query: 42 MESSDEESVHRRRVHLRPFTLRSPAPVTLHLLPCEVPVSRPAPVGRFFTPAIRQGPYGLE 221
ME+S EE++ +RRVHLRP TLR PAP +LHLLPCEVPV+RP PVGRFFTPAIR G GLE
Sbjct: 1 MENSYEETIDKRRVHLRPDTLRDPAPASLHLLPCEVPVNRPTPVGRFFTPAIRMGRDGLE 60
Query: 222 ASFRGRSLRGEEVAVPPGLVGYVMTEEQGEVSVGKQDFSEGSEEDHEVMESPETLERDFD 401
ASFRGRSLRGEEV VPPG VGYV+TEE+ EV +GKQD E E+ E++E PE LERD D
Sbjct: 61 ASFRGRSLRGEEVVVPPGFVGYVVTEEKAEVLMGKQDDHERQEQ--ELLEPPEALERDCD 118
Query: 402 RFIGATASFSSFTLWGLETIPGPDSKVRGALTWPSLAAAIHAQVPED 542
RF+GATASFSSFT+WGLE+IPGPD+K+RGAL+WPSLAAAIHAQVPED
Sbjct: 119 RFMGATASFSSFTVWGLESIPGPDAKLRGALSWPSLAAAIHAQVPED 165
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: 28,179,294
Number of extensions: 855329
Number of successful extensions: 4167
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4147
Number of HSP's successfully gapped: 1
Length of query: 243
Length of database: 17,681,374
Length adjustment: 99
Effective length of query: 144
Effective length of database: 14,405,662
Effective search space: 2074415328
Effective search space used: 2074415328
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)
Animal-Genome cDNA 20110601C-014013
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-014013
(730 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_852826.1| PREDICTED: similar to AYP1 protein isoform 1 [C... 251 5e-67
Alignment gi|XP_866382.1| PREDICTED: similar to AYP1 protein isoform 2 [C... 128 6e-30
>ref|XP_852826.1| PREDICTED: similar to AYP1 protein isoform 1 [Canis familiaris].
Length = 168
Score = 251 bits (641), Expect = 5e-67
Identities = 133/169 (78%), Positives = 141/169 (83%), Gaps = 2/169 (1%)
Frame = +3
Query: 42 MESSDEESVHRRRVHLRPFTLRSPAPVTLHLLPCEVPVSRPAPVGRFFTPAIRQGPYGLE 221
MESS+E +V + RVHLRP TLR A TLHLLPCEV V+RPAPV RFFTPAIRQGP GLE
Sbjct: 1 MESSEEAAVEKCRVHLRPGTLRDAARATLHLLPCEVLVNRPAPVDRFFTPAIRQGPDGLE 60
Query: 222 ASFRGRSLRGEEVAVPPGLVGYVMT-EEQGEVSVGKQDFSEGSE-EDHEVMESPETLERD 395
SFRGR LRGEEV VPPGLVGYVM EEQGEVS+ K DFSEG E E+ E E E LERD
Sbjct: 61 VSFRGRKLRGEEVVVPPGLVGYVMAMEEQGEVSMEK-DFSEGDEREEQERAEPREALERD 119
Query: 396 FDRFIGATASFSSFTLWGLETIPGPDSKVRGALTWPSLAAAIHAQVPED 542
FD+FIGA ASFS FTLWGLETIPGPD+KVRGALTWPSLAAAIHAQVPED
Sbjct: 120 FDQFIGAIASFSRFTLWGLETIPGPDAKVRGALTWPSLAAAIHAQVPED 168
>ref|XP_866382.1| PREDICTED: similar to AYP1 protein isoform 2 [Canis familiaris].
Length = 85
Score = 128 bits (321), Expect = 6e-30
Identities = 67/83 (80%), Positives = 71/83 (85%), Gaps = 1/83 (1%)
Frame = +3
Query: 297 EEQGEVSVGKQDFSEGSE-EDHEVMESPETLERDFDRFIGATASFSSFTLWGLETIPGPD 473
EEQGEVS+ K DFSEG E E+ E E E LERDFD+FIGA ASFS FTLWGLETIPGPD
Sbjct: 4 EEQGEVSMEK-DFSEGDEREEQERAEPREALERDFDQFIGAIASFSRFTLWGLETIPGPD 62
Query: 474 SKVRGALTWPSLAAAIHAQVPED 542
+KVRGALTWPSLAAAIHAQVPED
Sbjct: 63 AKVRGALTWPSLAAAIHAQVPED 85
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 29,470,142
Number of extensions: 885848
Number of successful extensions: 4306
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4281
Number of HSP's successfully gapped: 2
Length of query: 243
Length of database: 18,874,504
Length adjustment: 100
Effective length of query: 143
Effective length of database: 15,540,904
Effective search space: 2222349272
Effective search space used: 2222349272
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 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-014013
(730 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_003122603.2| PREDICTED: ribonuclease H2 subunit C-like [S... 340 5e-94
>ref|XP_003122603.2| PREDICTED: ribonuclease H2 subunit C-like [Sus scrofa].
Length = 167
Score = 340 bits (872), Expect = 5e-94
Identities = 167/167 (100%), Positives = 167/167 (100%)
Frame = +3
Query: 42 MESSDEESVHRRRVHLRPFTLRSPAPVTLHLLPCEVPVSRPAPVGRFFTPAIRQGPYGLE 221
MESSDEESVHRRRVHLRPFTLRSPAPVTLHLLPCEVPVSRPAPVGRFFTPAIRQGPYGLE
Sbjct: 1 MESSDEESVHRRRVHLRPFTLRSPAPVTLHLLPCEVPVSRPAPVGRFFTPAIRQGPYGLE 60
Query: 222 ASFRGRSLRGEEVAVPPGLVGYVMTEEQGEVSVGKQDFSEGSEEDHEVMESPETLERDFD 401
ASFRGRSLRGEEVAVPPGLVGYVMTEEQGEVSVGKQDFSEGSEEDHEVMESPETLERDFD
Sbjct: 61 ASFRGRSLRGEEVAVPPGLVGYVMTEEQGEVSVGKQDFSEGSEEDHEVMESPETLERDFD 120
Query: 402 RFIGATASFSSFTLWGLETIPGPDSKVRGALTWPSLAAAIHAQVPED 542
RFIGATASFSSFTLWGLETIPGPDSKVRGALTWPSLAAAIHAQVPED
Sbjct: 121 RFIGATASFSSFTLWGLETIPGPDSKVRGALTWPSLAAAIHAQVPED 167
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: 18,256,347
Number of extensions: 555770
Number of successful extensions: 2730
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2727
Number of HSP's successfully gapped: 1
Length of query: 243
Length of database: 11,343,932
Length adjustment: 96
Effective length of query: 147
Effective length of database: 8,953,820
Effective search space: 1316211540
Effective search space used: 1316211540
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: 32 (16.9 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-014013
(730 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_080892.1| ribonuclease H2 subunit C [Mus musculus]. 219 2e-57
>ref|NP_080892.1| ribonuclease H2 subunit C [Mus musculus].
Length = 166
Score = 219 bits (557), Expect = 2e-57
Identities = 111/168 (66%), Positives = 132/168 (78%), Gaps = 1/168 (0%)
Frame = +3
Query: 42 MESSDEESVHRRRVHLRPFTLRSPAPVTLHLLPCEVPVSRPAPVGRFFTPAIRQGPYGLE 221
M++ +E + ++R+HLRP +LR AP LHLLPC+V VSRPAPV RFFTPA+R GL+
Sbjct: 1 MKNPEEAADGKQRIHLRPGSLRGAAPAKLHLLPCDVLVSRPAPVDRFFTPAVRHDADGLQ 60
Query: 222 ASFRGRSLRGEEVAVPPGLVGYVM-TEEQGEVSVGKQDFSEGSEEDHEVMESPETLERDF 398
ASFRGR LRGEEVAVPPG G+VM TEE+GE +GK +FS +E+ + E+ E LERDF
Sbjct: 61 ASFRGRGLRGEEVAVPPGFAGFVMVTEEKGEGLIGKLNFSGDAEDKAD--EAQEPLERDF 118
Query: 399 DRFIGATASFSSFTLWGLETIPGPDSKVRGALTWPSLAAAIHAQVPED 542
DR IGAT SFS FTLWGLET+PGPD+KV AL WPSLAAAIHAQVPED
Sbjct: 119 DRLIGATGSFSHFTLWGLETVPGPDAKVHRALGWPSLAAAIHAQVPED 166
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: 23,998,148
Number of extensions: 696331
Number of successful extensions: 3204
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3185
Number of HSP's successfully gapped: 1
Length of query: 243
Length of database: 15,617,559
Length adjustment: 99
Effective length of query: 144
Effective length of database: 12,643,995
Effective search space: 1820735280
Effective search space used: 1820735280
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-014013
(730 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_115569.2| ribonuclease H2 subunit C [Homo sapiens]. 246 2e-65
>ref|NP_115569.2| ribonuclease H2 subunit C [Homo sapiens].
Length = 164
Score = 246 bits (627), Expect = 2e-65
Identities = 125/167 (74%), Positives = 133/167 (79%)
Frame = +3
Query: 42 MESSDEESVHRRRVHLRPFTLRSPAPVTLHLLPCEVPVSRPAPVGRFFTPAIRQGPYGLE 221
MES DE ++ R RVHLR TLR P TLHLLPCEV V PAPVGRFFTPAIRQGP GLE
Sbjct: 1 MESGDEAAIERHRVHLRSATLRDAVPATLHLLPCEVAVDGPAPVGRFFTPAIRQGPEGLE 60
Query: 222 ASFRGRSLRGEEVAVPPGLVGYVMTEEQGEVSVGKQDFSEGSEEDHEVMESPETLERDFD 401
SFRGR LRGEEVAVPPGLVGYVM E+ +VS+GK D S D + E LERDFD
Sbjct: 61 VSFRGRCLRGEEVAVPPGLVGYVMVTEEKKVSMGKPDPLRDSGTDD---QEEEPLERDFD 117
Query: 402 RFIGATASFSSFTLWGLETIPGPDSKVRGALTWPSLAAAIHAQVPED 542
RFIGATA+FS FTLWGLETIPGPD+KVRGALTWPSLAAAIHAQVPED
Sbjct: 118 RFIGATANFSRFTLWGLETIPGPDAKVRGALTWPSLAAAIHAQVPED 164
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 28,665,167
Number of extensions: 853370
Number of successful extensions: 4011
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3990
Number of HSP's successfully gapped: 1
Length of query: 243
Length of database: 18,297,164
Length adjustment: 100
Effective length of query: 143
Effective length of database: 15,000,764
Effective search space: 2145109252
Effective search space used: 2145109252
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 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-014013
(730 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_Chr02 424 e-116
>Sscrofa_Chr02
|| Length = 162569375
Score = 424 bits (214), Expect = e-116
Identities = 214/214 (100%)
Strand = Plus / Plus
Query: 1 gcttcggccttagccagcgagcggcggggtgcggccgagccatggagagcagcgacgagg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667167 gcttcggccttagccagcgagcggcggggtgcggccgagccatggagagcagcgacgagg 5667226
Query: 61 agtcggtgcacaggcgccgcgtgcacctgcgcccttttacgctgcgcagtcccgcccccg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667227 agtcggtgcacaggcgccgcgtgcacctgcgcccttttacgctgcgcagtcccgcccccg 5667286
Query: 121 tcacgctgcaccttctgccctgcgaggtcccggttagccggcccgccccggtggggcgct 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667287 tcacgctgcaccttctgccctgcgaggtcccggttagccggcccgccccggtggggcgct 5667346
Query: 181 tcttcaccccagccatccgccagggtccctacgg 214
||||||||||||||||||||||||||||||||||
Sbjct: 5667347 tcttcaccccagccatccgccagggtccctacgg 5667380
Score = 371 bits (187), Expect = e-100
Identities = 187/187 (100%)
Strand = Plus / Plus
Query: 213 gggctggaagcgtccttccggggccgcagtctgcgcggcgaggaggtggcggtgccgccc 272
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667569 gggctggaagcgtccttccggggccgcagtctgcgcggcgaggaggtggcggtgccgccc 5667628
Query: 273 ggccttgtgggatacgtgatgacagaagagcagggagaggtgtcggtggggaagcaggac 332
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667629 ggccttgtgggatacgtgatgacagaagagcagggagaggtgtcggtggggaagcaggac 5667688
Query: 333 ttctcggaggggtcggaggaggaccacgaagtgatggaatccccggagacgctggagcgg 392
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667689 ttctcggaggggtcggaggaggaccacgaagtgatggaatccccggagacgctggagcgg 5667748
Query: 393 gacttcg 399
|||||||
Sbjct: 5667749 gacttcg 5667755
Score = 250 bits (126), Expect = 9e-64
Identities = 126/126 (100%)
Strand = Plus / Plus
Query: 518 gattcacgcccaggtaccagaggactgaaaaccagaccttgaaactgaaagccactgatc 577
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5668194 gattcacgcccaggtaccagaggactgaaaaccagaccttgaaactgaaagccactgatc 5668253
Query: 578 ccttcactccagtgaaccccttcactttgggagccttcgtcaccccaataaaggcgctct 637
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5668254 ccttcactccagtgaaccccttcactttgggagccttcgtcaccccaataaaggcgctct 5668313
Query: 638 tcacag 643
||||||
Sbjct: 5668314 tcacag 5668319
Score = 238 bits (120), Expect = 3e-60
Identities = 120/120 (100%)
Strand = Plus / Plus
Query: 399 gaccgctttatcggcgccacagccagtttcagcagcttcaccctgtggggcctggagact 458
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667834 gaccgctttatcggcgccacagccagtttcagcagcttcaccctgtggggcctggagact 5667893
Query: 459 atccctggtccggattccaaagtgcgtggggccctaacctggcccagccttgctgcagcg 518
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5667894 atccctggtccggattccaaagtgcgtggggccctaacctggcccagccttgctgcagcg 5667953
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: 14,454,257
Number of extensions: 219
Number of successful extensions: 219
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 219
Number of HSP's successfully gapped: 4
Length of query: 730
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 709
Effective length of database: 2,808,413,156
Effective search space: 1991164927604
Effective search space used: 1991164927604
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 17 (34.2 bits)
S2: 29 (58.0 bits)