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-000025
(1033 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_001014847.1| RNA-binding protein Raly [Bos taurus]. 276 3e-74
Alignment gi|NP_001071400.1| RNA-binding Raly-like protein [Bos taurus]. 174 1e-43
Alignment gi|NP_001029567.1| heterogeneous nuclear ribonucleoprotein C [B... 156 3e-38
Alignment gi|NP_001030349.1| serine/arginine-rich splicing factor 6 [Bos ... 54 2e-07
Alignment gi|NP_001014901.1| RNA-binding protein 14 [Bos taurus]. 54 3e-07
Alignment gi|NP_001092399.1| splicing factor, arginine/serine-rich 5 [Bos... 49 9e-06
>ref|NP_001014847.1| RNA-binding protein Raly [Bos taurus].
Length = 283
Score = 276 bits (705), Expect = 3e-74
Identities = 155/212 (73%), Positives = 157/212 (74%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAV+GENGRVLAGQTLDINMAGEPKPNRPKGLKR ASAI
Sbjct: 61 QYANERHARAAVVGENGRVLAGQTLDINMAGEPKPNRPKGLKRAASAI------------ 108
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTAITTG+AKI
Sbjct: 109 ----YRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAITTGTAKI 164
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQ IKTELTQIKSNIDALLGRLE IA
Sbjct: 165 KLKSSELQTIKTELTQIKSNIDALLGRLEQIA 196
>ref|NP_001071400.1| RNA-binding Raly-like protein [Bos taurus].
Length = 293
Score = 174 bits (441), Expect = 1e-43
Identities = 86/109 (78%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSNVTNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN R++AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 61 QYMSERHARAAVAGENARIIAGQPLDINMAGEPKPYRPKPGNKRPISAL 109
Score = 50.4 bits (119), Expect = 2e-06
Identities = 27/44 (61%), Positives = 32/44 (72%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RS + S+ KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 179 SRSAVSGSSSSGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 222
>ref|NP_001029567.1| heterogeneous nuclear ribonucleoprotein C [Bos taurus].
Length = 294
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_001030349.1| serine/arginine-rich splicing factor 6 [Bos taurus].
Length = 345
Score = 53.9 bits (128), Expect = 2e-07
Identities = 29/76 (38%), Positives = 45/76 (59%)
Frame = +3
Query: 459 RVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLA 638
RV+IG L+ V +K D++ FS YGR+ G + GY FV++ + R A AV NG+ L
Sbjct: 3 RVYIGRLSYNVREK-DIQRFFSGYGRLLGIDLKNGYGFVEFEDSRDADDAVYELNGKELC 61
Query: 639 GQTLDINMAGEPKPNR 686
G+ + + A P+ +R
Sbjct: 62 GERVIVEHARGPRRDR 77
>ref|NP_001014901.1| RNA-binding protein 14 [Bos taurus].
Length = 669
Score = 53.5 bits (127), Expect = 3e-07
Identities = 26/90 (28%), Positives = 53/90 (58%), Gaps = 1/90 (1%)
Frame = +3
Query: 423 VTNKNDPKSINS-RVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERHA 599
V + P+ +N+ ++F+GN++ A + ++ ++F + GRV C V K YAFV E A
Sbjct: 67 VVEMSRPRPLNTWKIFVGNVSAACTSQ-ELRSLFERRGRVIECDVVKDYAFVHMEKEADA 125
Query: 600 RAAVLGENGRVLAGQTLDINMAGEPKPNRP 689
+AA+ NG+ + G+ +++ ++ + + P
Sbjct: 126 KAAIAQLNGKEVKGKRINVELSTKGQKKGP 155
>ref|NP_001092399.1| splicing factor, arginine/serine-rich 5 [Bos taurus].
Length = 272
Score = 48.5 bits (114), Expect = 9e-06
Identities = 27/69 (39%), Positives = 39/69 (56%)
Frame = +3
Query: 459 RVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLA 638
RVFIG LN A +K DVE F YGR+ + +G+ FV++ + R A AV +G+ L
Sbjct: 5 RVFIGRLNPAAREK-DVERFFKGYGRIRDIDLKRGFGFVEFEDPRDADDAVYELDGKELC 63
Query: 639 GQTLDINMA 665
+ + I A
Sbjct: 64 SERVTIEHA 72
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: 32,744,660
Number of extensions: 835105
Number of successful extensions: 3661
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 3631
Number of HSP's successfully gapped: 8
Length of query: 344
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 241
Effective length of database: 14,273,310
Effective search space: 3439867710
Effective search space used: 3439867710
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-000025
(1033 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_542969.2| PREDICTED: similar to RNA-binding protein Raly ... 279 4e-75
Alignment gi|XP_544154.2| PREDICTED: similar to autoantigenic hnRNP-assoc... 174 1e-43
Alignment gi|XP_863713.1| PREDICTED: similar to Heterogeneous nuclear rib... 166 4e-41
Alignment gi|XP_532622.1| PREDICTED: similar to heterogeneous nuclear rib... 156 3e-38
Alignment gi|XP_863957.1| PREDICTED: similar to heterogeneous nuclear rib... 156 3e-38
Alignment gi|XP_863937.1| PREDICTED: similar to heterogeneous nuclear rib... 156 3e-38
Alignment gi|XP_863916.1| PREDICTED: similar to heterogeneous nuclear rib... 156 3e-38
Alignment gi|XP_863897.1| PREDICTED: similar to heterogeneous nuclear rib... 156 3e-38
Alignment gi|XP_863871.1| PREDICTED: similar to heterogeneous nuclear rib... 156 3e-38
Alignment gi|XP_863848.1| PREDICTED: similar to Heterogeneous nuclear rib... 156 3e-38
>ref|XP_542969.2| PREDICTED: similar to RNA-binding protein Raly (hnRNP associated with
lethal yellow protein) (Maternally expressed hnRNP
C-related protein) [Canis familiaris].
Length = 293
Score = 279 bits (713), Expect = 4e-75
Identities = 155/212 (73%), Positives = 155/212 (73%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKR AS I
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRAASVIYSGYSFDYDYYR 120
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTAIT GSAKI
Sbjct: 121 DDFYDRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAITAGSAKI 180
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQ IKTELTQIKSNIDALLGRLE IA
Sbjct: 181 KLKSSELQTIKTELTQIKSNIDALLGRLEQIA 212
>ref|XP_544154.2| PREDICTED: similar to autoantigenic hnRNP-associated with lethal
yellow isoform 1 [Canis familiaris].
Length = 293
Score = 174 bits (441), Expect = 1e-43
Identities = 86/109 (78%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSNVTNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN R++AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 61 QYMSERHARAAVAGENARIIAGQPLDINMAGEPKPYRPKPGNKRPLSAL 109
Score = 52.4 bits (124), Expect = 7e-07
Identities = 28/44 (63%), Positives = 33/44 (75%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RST + S+ KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 179 SRSTVSGSSSSGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 222
>ref|XP_863713.1| PREDICTED: similar to Heterogeneous nuclear ribonucleoproteins C1/C2
(hnRNP C1 / hnRNP C2) isoform 17 [Canis familiaris].
Length = 296
Score = 166 bits (419), Expect = 4e-41
Identities = 98/205 (47%), Positives = 118/205 (57%), Gaps = 1/205 (0%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAIXXXXXXXXXXXXXXXXXX 773
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+ +
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAAEMYGSSFDLDYDFQRDYYDR 122
Query: 774 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKIKLKSSE 953
K R ++ +G KLK +
Sbjct: 123 YVKARVPPPPPIARAVVPSKRQRVSGNTSRRGKSGFNSKSGQRGSSSKSG----KLKGDD 178
Query: 954 LQAIKTELTQIKSNIDALLGRLEPI 1028
LQ IK ELTQIK +D+LL LE I
Sbjct: 179 LQTIKKELTQIKQKVDSLLESLEKI 203
>ref|XP_532622.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 1 [Canis familiaris].
Length = 294
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|XP_863957.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 27 [Canis familiaris].
Length = 294
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|XP_863937.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 26 [Canis familiaris].
Length = 294
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|XP_863916.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 25 [Canis familiaris].
Length = 294
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|XP_863897.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 24 [Canis familiaris].
Length = 294
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|XP_863871.1| PREDICTED: similar to heterogeneous nuclear ribonucleoprotein C
isoform b isoform 23 [Canis familiaris].
Length = 294
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|XP_863848.1| PREDICTED: similar to Heterogeneous nuclear ribonucleoproteins
C1/C2 (hnRNP C1 / hnRNP C2) isoform 22 [Canis
familiaris].
Length = 307
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
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: 34,059,893
Number of extensions: 853794
Number of successful extensions: 3724
Number of sequences better than 1.0e-05: 33
Number of HSP's gapped: 3692
Number of HSP's successfully gapped: 35
Length of query: 344
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 240
Effective length of database: 15,407,560
Effective search space: 3697814400
Effective search space used: 3697814400
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-000025
(1033 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_057951.1| RNA-binding protein Raly isoform 1 [Homo sapien... 270 2e-72
Alignment gi|NP_031393.2| RNA-binding protein Raly isoform 2 [Homo sapien... 265 4e-71
Alignment gi|NP_001093863.1| RNA-binding Raly-like protein isoform 2 [Hom... 174 9e-44
Alignment gi|NP_001093862.1| RNA-binding Raly-like protein isoform 2 [Hom... 174 9e-44
Alignment gi|NP_001093861.1| RNA-binding Raly-like protein isoform 1 [Hom... 174 9e-44
Alignment gi|NP_776247.3| RNA-binding Raly-like protein isoform 2 [Homo s... 174 9e-44
Alignment gi|NP_001070911.1| heterogeneous nuclear ribonucleoproteins C1/... 156 3e-38
Alignment gi|NP_001070910.1| heterogeneous nuclear ribonucleoproteins C1/... 156 3e-38
Alignment gi|NP_004491.2| heterogeneous nuclear ribonucleoproteins C1/C2 ... 156 3e-38
Alignment gi|NP_112604.2| heterogeneous nuclear ribonucleoproteins C1/C2 ... 156 3e-38
>ref|NP_057951.1| RNA-binding protein Raly isoform 1 [Homo sapiens].
Length = 306
Score = 270 bits (689), Expect = 2e-72
Identities = 148/212 (69%), Positives = 154/212 (72%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLK+Q SNVTNKNDPKSINSRVFIGNLNTA+VKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QY+NERHARAAVLGENGRVLAGQTLDINMAGEPKP+RPKGLKR ASAI
Sbjct: 61 QYSNERHARAAVLGENGRVLAGQTLDINMAGEPKPDRPKGLKRAASAIYSGYIFDYDYYR 120
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
+PVKLFARSTA+TT SAKI
Sbjct: 121 DDFYDRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTNVPVKLFARSTAVTTSSAKI 180
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQAIKTELTQIKSNIDALL RLE IA
Sbjct: 181 KLKSSELQAIKTELTQIKSNIDALLSRLEQIA 212
>ref|NP_031393.2| RNA-binding protein Raly isoform 2 [Homo sapiens].
Length = 290
Score = 265 bits (678), Expect = 4e-71
Identities = 148/212 (69%), Positives = 154/212 (72%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLK+Q SNVTNKNDPKSINSRVFIGNLNTA+VKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QY+NERHARAAVLGENGRVLAGQTLDINMAGEPKP+RPKGLKR ASAI
Sbjct: 61 QYSNERHARAAVLGENGRVLAGQTLDINMAGEPKPDRPKGLKRAASAI------------ 108
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
+PVKLFARSTA+TT SAKI
Sbjct: 109 ----YRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTNVPVKLFARSTAVTTSSAKI 164
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQAIKTELTQIKSNIDALL RLE IA
Sbjct: 165 KLKSSELQAIKTELTQIKSNIDALLSRLEQIA 196
>ref|NP_001093863.1| RNA-binding Raly-like protein isoform 2 [Homo sapiens].
Length = 291
Score = 174 bits (442), Expect = 9e-44
Identities = 87/109 (79%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSNVTNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN RV+AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGNKRPLSAL 109
Score = 52.4 bits (124), Expect = 7e-07
Identities = 30/44 (68%), Positives = 34/44 (77%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RSTA +GS KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 179 SRSTA--SGSTGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 220
>ref|NP_001093862.1| RNA-binding Raly-like protein isoform 2 [Homo sapiens].
Length = 291
Score = 174 bits (442), Expect = 9e-44
Identities = 87/109 (79%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSNVTNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN RV+AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGNKRPLSAL 109
Score = 52.4 bits (124), Expect = 7e-07
Identities = 30/44 (68%), Positives = 34/44 (77%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RSTA +GS KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 179 SRSTA--SGSTGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 220
>ref|NP_001093861.1| RNA-binding Raly-like protein isoform 1 [Homo sapiens].
Length = 304
Score = 174 bits (442), Expect = 9e-44
Identities = 87/109 (79%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSNVTNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 14 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 73
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN RV+AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 74 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGNKRPLSAL 122
Score = 52.4 bits (124), Expect = 7e-07
Identities = 30/44 (68%), Positives = 34/44 (77%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RSTA +GS KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 192 SRSTA--SGSTGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 233
>ref|NP_776247.3| RNA-binding Raly-like protein isoform 2 [Homo sapiens].
Length = 291
Score = 174 bits (442), Expect = 9e-44
Identities = 87/109 (79%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSNVTNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN RV+AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGNKRPLSAL 109
Score = 52.4 bits (124), Expect = 7e-07
Identities = 30/44 (68%), Positives = 34/44 (77%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RSTA +GS KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 179 SRSTA--SGSTGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 220
>ref|NP_001070911.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform b [Homo
sapiens].
Length = 293
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_001070910.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform a [Homo
sapiens].
Length = 306
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_004491.2| heterogeneous nuclear ribonucleoproteins C1/C2 isoform b [Homo
sapiens].
Length = 293
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_112604.2| heterogeneous nuclear ribonucleoproteins C1/C2 isoform a [Homo
sapiens].
Length = 306
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
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: 33,481,741
Number of extensions: 842157
Number of successful extensions: 3574
Number of sequences better than 1.0e-05: 18
Number of HSP's gapped: 3552
Number of HSP's successfully gapped: 24
Length of query: 344
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 241
Effective length of database: 14,901,872
Effective search space: 3591351152
Effective search space used: 3591351152
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-000025
(1033 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_001132985.1| RNA-binding protein Raly long isoform [Mus m... 281 8e-76
Alignment gi|NP_075619.2| RNA-binding protein Raly short isoform [Mus mus... 276 1e-74
Alignment gi|NP_001132984.1| RNA-binding protein Raly short isoform [Mus ... 276 1e-74
Alignment gi|NP_001132983.1| RNA-binding protein Raly short isoform [Mus ... 276 1e-74
Alignment gi|NP_001156800.1| RNA-binding Raly-like protein isoform a [Mus... 174 8e-44
Alignment gi|NP_848746.1| RNA-binding Raly-like protein isoform a [Mus mu... 174 8e-44
Alignment gi|NP_001164454.1| heterogeneous nuclear ribonucleoproteins C1/... 156 3e-38
Alignment gi|NP_058580.1| heterogeneous nuclear ribonucleoproteins C1/C2 ... 156 3e-38
Alignment gi|NP_001164453.1| heterogeneous nuclear ribonucleoproteins C1/... 156 3e-38
Alignment gi|NP_001164455.1| heterogeneous nuclear ribonucleoproteins C1/... 156 3e-38
>ref|NP_001132985.1| RNA-binding protein Raly long isoform [Mus musculus].
Length = 312
Score = 281 bits (718), Expect = 8e-76
Identities = 155/212 (73%), Positives = 157/212 (74%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKR A+AI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRAATAIYSGYSFDYDYYQ 120
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTA+TTGSAKI
Sbjct: 121 DYFCARLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAVTTGSAKI 180
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQ IKTELTQIKSNIDALLGRLE IA
Sbjct: 181 KLKSSELQTIKTELTQIKSNIDALLGRLEQIA 212
>ref|NP_075619.2| RNA-binding protein Raly short isoform [Mus musculus].
Length = 296
Score = 276 bits (707), Expect = 1e-74
Identities = 155/212 (73%), Positives = 157/212 (74%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKR A+AI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRAATAI------------ 108
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTA+TTGSAKI
Sbjct: 109 ----YRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAVTTGSAKI 164
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQ IKTELTQIKSNIDALLGRLE IA
Sbjct: 165 KLKSSELQTIKTELTQIKSNIDALLGRLEQIA 196
>ref|NP_001132984.1| RNA-binding protein Raly short isoform [Mus musculus].
Length = 296
Score = 276 bits (707), Expect = 1e-74
Identities = 155/212 (73%), Positives = 157/212 (74%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKR A+AI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRAATAI------------ 108
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTA+TTGSAKI
Sbjct: 109 ----YRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAVTTGSAKI 164
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQ IKTELTQIKSNIDALLGRLE IA
Sbjct: 165 KLKSSELQTIKTELTQIKSNIDALLGRLEQIA 196
>ref|NP_001132983.1| RNA-binding protein Raly short isoform [Mus musculus].
Length = 296
Score = 276 bits (707), Expect = 1e-74
Identities = 155/212 (73%), Positives = 157/212 (74%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKR A+AI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRAATAI------------ 108
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTA+TTGSAKI
Sbjct: 109 ----YRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAVTTGSAKI 164
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQ IKTELTQIKSNIDALLGRLE IA
Sbjct: 165 KLKSSELQTIKTELTQIKSNIDALLGRLEQIA 196
>ref|NP_001156800.1| RNA-binding Raly-like protein isoform a [Mus musculus].
Length = 293
Score = 174 bits (442), Expect = 8e-44
Identities = 86/109 (78%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSN+TNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNITNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN RV+AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGSKRPLSAL 109
Score = 51.6 bits (122), Expect = 1e-06
Identities = 28/44 (63%), Positives = 33/44 (75%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RST + S+ KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 179 SRSTVGGSSSSGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 222
>ref|NP_848746.1| RNA-binding Raly-like protein isoform a [Mus musculus].
Length = 293
Score = 174 bits (442), Expect = 8e-44
Identities = 86/109 (78%), Positives = 95/109 (87%), Gaps = 1/109 (0%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSN+TNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNITNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTASAI 719
QY +ERHARAAV GEN RV+AGQ LDINMAGEPKP RPK G KR SA+
Sbjct: 61 QYMSERHARAAVAGENARVIAGQPLDINMAGEPKPYRPKPGSKRPLSAL 109
Score = 51.6 bits (122), Expect = 1e-06
Identities = 28/44 (63%), Positives = 33/44 (75%)
Frame = +3
Query: 897 ARSTAITTGSAKIKLKSSELQAIKTELTQIKSNIDALLGRLEPI 1028
+RST + S+ KLKS ELQ IK ELTQIK+ ID+LLGRLE I
Sbjct: 179 SRSTVGGSSSSGSKLKSDELQTIKKELTQIKTKIDSLLGRLEKI 222
>ref|NP_001164454.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 3 [Mus
musculus].
Length = 293
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_058580.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 1 [Mus
musculus].
Length = 313
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_001164453.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 2 [Mus
musculus].
Length = 300
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_001164455.1| heterogeneous nuclear ribonucleoproteins C1/C2 isoform 4 [Mus
musculus].
Length = 292
Score = 156 bits (394), Expect = 3e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
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: 28,354,027
Number of extensions: 707528
Number of successful extensions: 3205
Number of sequences better than 1.0e-05: 19
Number of HSP's gapped: 3163
Number of HSP's successfully gapped: 25
Length of query: 344
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 242
Effective length of database: 12,553,887
Effective search space: 3038040654
Effective search space used: 3038040654
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-000025
(1033 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_003134445.2| PREDICTED: RNA-binding protein Raly-like iso... 286 2e-77
Alignment gi|XP_003359995.1| PREDICTED: RNA-binding protein Raly [Sus scr... 286 2e-77
Alignment gi|XP_001929139.2| PREDICTED: RNA-binding protein Raly isoform ... 286 2e-77
Alignment gi|XP_003134451.1| PREDICTED: RNA-binding protein Raly isoform ... 281 3e-76
Alignment gi|NP_001230622.1| heterogeneous nuclear ribonucleoprotein C (C... 156 2e-38
Alignment gi|NP_001230623.1| heterogeneous nuclear ribonucleoprotein C (C... 156 2e-38
Alignment gi|XP_003125632.1| PREDICTED: RNA-binding Raly-like protein-lik... 146 2e-35
Alignment gi|NP_001070685.1| serine/arginine-rich splicing factor 6 [Sus ... 51 1e-06
Alignment gi|XP_003360793.1| PREDICTED: serine/arginine-rich splicing fac... 49 6e-06
Alignment gi|XP_001927469.2| PREDICTED: serine/arginine-rich splicing fac... 49 6e-06
>ref|XP_003134445.2| PREDICTED: RNA-binding protein Raly-like isoform 1 [Sus scrofa].
Length = 327
Score = 286 bits (731), Expect = 2e-77
Identities = 159/212 (75%), Positives = 159/212 (75%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIYSGYSFDYDYYR 120
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTAITTGSAKI
Sbjct: 121 DDFYDRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAITTGSAKI 180
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQAIKTELTQIKSNIDALLGRLE IA
Sbjct: 181 KLKSSELQAIKTELTQIKSNIDALLGRLEQIA 212
>ref|XP_003359995.1| PREDICTED: RNA-binding protein Raly [Sus scrofa].
Length = 327
Score = 286 bits (731), Expect = 2e-77
Identities = 159/212 (75%), Positives = 159/212 (75%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIYSGYSFDYDYYR 120
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTAITTGSAKI
Sbjct: 121 DDFYDRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAITTGSAKI 180
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQAIKTELTQIKSNIDALLGRLE IA
Sbjct: 181 KLKSSELQAIKTELTQIKSNIDALLGRLEQIA 212
>ref|XP_001929139.2| PREDICTED: RNA-binding protein Raly isoform 1 [Sus scrofa].
Length = 327
Score = 286 bits (731), Expect = 2e-77
Identities = 159/212 (75%), Positives = 159/212 (75%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIYSGYSFDYDYYR 120
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTAITTGSAKI
Sbjct: 121 DDFYDRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAITTGSAKI 180
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQAIKTELTQIKSNIDALLGRLE IA
Sbjct: 181 KLKSSELQAIKTELTQIKSNIDALLGRLEQIA 212
>ref|XP_003134451.1| PREDICTED: RNA-binding protein Raly isoform 2 [Sus scrofa].
Length = 311
Score = 281 bits (720), Expect = 3e-76
Identities = 159/212 (75%), Positives = 159/212 (75%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV
Sbjct: 1 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAIXXXXXXXXXXXX 755
QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAI
Sbjct: 61 QYANERHARAAVLGENGRVLAGQTLDINMAGEPKPNRPKGLKRTASAI------------ 108
Query: 756 XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTIPVKLFARSTAITTGSAKI 935
TIPVKLFARSTAITTGSAKI
Sbjct: 109 ----YRLFDYRGRLSPVPVPRAVPVKRPRVTVPLVRRVKTTIPVKLFARSTAITTGSAKI 164
Query: 936 KLKSSELQAIKTELTQIKSNIDALLGRLEPIA 1031
KLKSSELQAIKTELTQIKSNIDALLGRLE IA
Sbjct: 165 KLKSSELQAIKTELTQIKSNIDALLGRLEQIA 196
>ref|NP_001230622.1| heterogeneous nuclear ribonucleoprotein C (C1/C2) 1 [Sus scrofa].
Length = 313
Score = 156 bits (394), Expect = 2e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|NP_001230623.1| heterogeneous nuclear ribonucleoprotein C (C1/C2) 2 [Sus scrofa].
Length = 294
Score = 156 bits (394), Expect = 2e-38
Identities = 76/100 (76%), Positives = 89/100 (89%), Gaps = 1/100 (1%)
Frame = +3
Query: 417 SNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERH 596
SNVTNK DP+S+NSRVFIGNLNT VVKKSDVE IFSKYG++ GCSVHKG+AFVQY NER+
Sbjct: 3 SNVTNKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKGFAFVQYVNERN 62
Query: 597 ARAAVLGENGRVLAGQTLDINMAGEPKPNRPK-GLKRTAS 713
ARAAV GE+GR++AGQ LDIN+A EPK NR K G+KR+A+
Sbjct: 63 ARAAVAGEDGRMIAGQVLDINLAAEPKVNRGKAGVKRSAA 102
>ref|XP_003125632.1| PREDICTED: RNA-binding Raly-like protein-like [Sus scrofa].
Length = 88
Score = 146 bits (368), Expect = 2e-35
Identities = 69/86 (80%), Positives = 77/86 (89%)
Frame = +3
Query: 396 MSLKIQTSNVTNKNDPKSINSRVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFV 575
M+ K QTSNVTNKNDPKSINSRVFIGNLNTA+VKK D+E IFSKYG++ GCSVHKGYAFV
Sbjct: 1 MTGKTQTSNVTNKNDPKSINSRVFIGNLNTAIVKKVDIEAIFSKYGKIVGCSVHKGYAFV 60
Query: 576 QYANERHARAAVLGENGRVLAGQTLD 653
QY +ERHARAAV GEN R++AGQ LD
Sbjct: 61 QYMSERHARAAVAGENARIIAGQPLD 86
>ref|NP_001070685.1| serine/arginine-rich splicing factor 6 [Sus scrofa].
Length = 345
Score = 50.8 bits (120), Expect = 1e-06
Identities = 28/76 (36%), Positives = 44/76 (57%)
Frame = +3
Query: 459 RVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLA 638
RV+IG L+ V +K D++ FS YGR+ + GY FV++ + R A AV NG+ L
Sbjct: 3 RVYIGRLSYNVREK-DIQRFFSGYGRLLEIDLKNGYGFVEFEDSRDADDAVYELNGKELC 61
Query: 639 GQTLDINMAGEPKPNR 686
G+ + + A P+ +R
Sbjct: 62 GERVIVEHARGPRRDR 77
>ref|XP_003360793.1| PREDICTED: serine/arginine-rich splicing factor 5-like [Sus
scrofa].
Length = 221
Score = 48.5 bits (114), Expect = 6e-06
Identities = 27/69 (39%), Positives = 39/69 (56%)
Frame = +3
Query: 459 RVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLA 638
RVFIG LN A +K DVE F YGR+ + +G+ FV++ + R A AV +G+ L
Sbjct: 5 RVFIGRLNPAAREK-DVERFFKGYGRIRDIDLKRGFGFVEFEDPRDADDAVYELDGKELC 63
Query: 639 GQTLDINMA 665
+ + I A
Sbjct: 64 SERVTIEHA 72
>ref|XP_001927469.2| PREDICTED: serine/arginine-rich splicing factor 5 isoform 2 [Sus
scrofa].
Length = 272
Score = 48.5 bits (114), Expect = 6e-06
Identities = 27/69 (39%), Positives = 39/69 (56%)
Frame = +3
Query: 459 RVFIGNLNTAVVKKSDVETIFSKYGRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLA 638
RVFIG LN A +K DVE F YGR+ + +G+ FV++ + R A AV +G+ L
Sbjct: 5 RVFIGRLNPAAREK-DVERFFKGYGRIRDIDLKRGFGFVEFEDPRDADDAVYELDGKELC 63
Query: 639 GQTLDINMA 665
+ + I A
Sbjct: 64 SERVTIEHA 72
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: 21,102,626
Number of extensions: 536953
Number of successful extensions: 2375
Number of sequences better than 1.0e-05: 14
Number of HSP's gapped: 2356
Number of HSP's successfully gapped: 18
Length of query: 344
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 244
Effective length of database: 8,854,232
Effective search space: 2160432608
Effective search space used: 2160432608
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-000025
(1033 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_Chr17 527 e-147
Sscrofa_Chr01 80 3e-12
Sscrofa_Chr04 68 1e-08
>Sscrofa_Chr17
|| Length = 69701581
Score = 527 bits (266), Expect = e-147
Identities = 266/266 (100%)
Strand = Plus / Minus
Query: 386 ggtggctaccatgtccttaaagatccagacaagcaacgtaaccaacaagaatgaccccaa 445
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42879590 ggtggctaccatgtccttaaagatccagacaagcaacgtaaccaacaagaatgaccccaa 42879531
Query: 446 gtctatcaactctagggtcttcattggaaacctcaacacagccgtggtgaagaaatctga 505
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42879530 gtctatcaactctagggtcttcattggaaacctcaacacagccgtggtgaagaaatctga 42879471
Query: 506 tgtggagactatcttctccaagtatggccgtgtggccggctgttctgtgcacaagggcta 565
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42879470 tgtggagactatcttctccaagtatggccgtgtggccggctgttctgtgcacaagggcta 42879411
Query: 566 tgcctttgtgcagtatgccaacgagcgccatgcccgggcagctgtgctgggagagaatgg 625
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42879410 tgcctttgtgcagtatgccaacgagcgccatgcccgggcagctgtgctgggagagaatgg 42879351
Query: 626 gcgagtgctggccgggcagaccctgg 651
||||||||||||||||||||||||||
Sbjct: 42879350 gcgagtgctggccgggcagaccctgg 42879325
Score = 420 bits (212), Expect = e-115
Identities = 212/212 (100%)
Strand = Plus / Minus
Query: 1 gtgcggcggggcgcgcgagcagcgcggctgcggggtgggctgagcagagagaagctgagg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42965518 gtgcggcggggcgcgcgagcagcgcggctgcggggtgggctgagcagagagaagctgagg 42965459
Query: 61 gggcggtagcggcagcggcgattcgcgtgcctgtgctcagctcctcacgccgcggccggg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42965458 gggcggtagcggcagcggcgattcgcgtgcctgtgctcagctcctcacgccgcggccggg 42965399
Query: 121 gccgccttctccctccttccttcccgcccccgagtgcggcggtaccgcctccttcagcgc 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42965398 gccgccttctccctccttccttcccgcccccgagtgcggcggtaccgcctccttcagcgc 42965339
Query: 181 cgcgcggcttcctccagacctccgtgcgcggg 212
||||||||||||||||||||||||||||||||
Sbjct: 42965338 cgcgcggcttcctccagacctccgtgcgcggg 42965307
Score = 339 bits (171), Expect = 2e-90
Identities = 171/171 (100%)
Strand = Plus / Minus
Query: 769 acaggctcttcgactatcggggccgcctgtcaccagtgccagtgcccagggcggtccctg 828
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42875295 acaggctcttcgactatcggggccgcctgtcaccagtgccagtgcccagggcggtccctg 42875236
Query: 829 tgaagcgaccccgggtcacagtccccttggtccggcgtgtcaaaaccaccatacctgtca 888
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42875235 tgaagcgaccccgggtcacagtccccttggtccggcgtgtcaaaaccaccatacctgtca 42875176
Query: 889 agctctttgcccgctccacagctatcaccaccggctcagccaagatcaagt 939
|||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42875175 agctctttgcccgctccacagctatcaccaccggctcagccaagatcaagt 42875125
Score = 178 bits (90), Expect = 4e-42
Identities = 97/98 (98%), Gaps = 1/98 (1%)
Strand = Plus / Minus
Query: 211 gggccatcccttagccttctacacactgaactgaaactcaagccctctccttggaactct 270
||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42943055 gggccatcccttagc-ttctacacactgaactgaaactcaagccctctccttggaactct 42942997
Query: 271 tcaaagactggaggaaattccttaaaaccagtggtgag 308
||||||||||||||||||||||||||||||||||||||
Sbjct: 42942996 tcaaagactggaggaaattccttaaaaccagtggtgag 42942959
Score = 170 bits (86), Expect = 1e-39
Identities = 86/86 (100%)
Strand = Plus / Minus
Query: 303 ggtgagctctgttctcagaggcatttggtgctgatcctgtaacccaaaagaggaaattgc 362
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42925743 ggtgagctctgttctcagaggcatttggtgctgatcctgtaacccaaaagaggaaattgc 42925684
Query: 363 tgcctgagatcagccttggtactggt 388
||||||||||||||||||||||||||
Sbjct: 42925683 tgcctgagatcagccttggtactggt 42925658
Score = 163 bits (82), Expect = 2e-37
Identities = 91/94 (96%)
Strand = Plus / Minus
Query: 940 taaagagcagtgaactgcaggccatcaagacagagctgacccaaatcaagtccaacatcg 999
||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 42874407 taaagagcagtgaactgcaggccatcaagacagagctgacccagatcaagtccaacatcg 42874348
Query: 1000 atgccctgctgggtcgcttggagccaattgctga 1033
|||||||||||||||||||||||| ||||||||
Sbjct: 42874347 atgccctgctgggtcgcttggagcagattgctga 42874314
Score = 147 bits (74), Expect = 1e-32
Identities = 74/74 (100%)
Strand = Plus / Minus
Query: 651 gacatcaacatggctggagagcccaagcccaacagacccaaggggctaaaaagaacagca 710
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42877894 gacatcaacatggctggagagcccaagcccaacagacccaaggggctaaaaagaacagca 42877835
Query: 711 tctgccatatacag 724
||||||||||||||
Sbjct: 42877834 tctgccatatacag 42877821
Score = 103 bits (52), Expect = 2e-19
Identities = 52/52 (100%)
Strand = Plus / Minus
Query: 722 cagtggctacagctttgactatgattactaccgggacgacttctacgacagg 773
||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 42877631 cagtggctacagctttgactatgattactaccgggacgacttctacgacagg 42877580
>Sscrofa_Chr01
|| Length = 315321322
Score = 79.8 bits (40), Expect = 3e-12
Identities = 58/64 (90%)
Strand = Plus / Plus
Query: 316 ctcagaggcatttggtgctgatcctgtaacccaaaagaggaaattgctgcctgagatcag 375
|||||||||| ||||| |||||||||||||| |||| |||||||||||| ||||| ||||
Sbjct: 218275488 ctcagaggcagttggtactgatcctgtaaccaaaaataggaaattgctggctgagctcag 218275547
Query: 376 cctt 379
||||
Sbjct: 218275548 cctt 218275551
>Sscrofa_Chr04
|| Length = 143465943
Score = 67.9 bits (34), Expect = 1e-08
Identities = 67/78 (85%)
Strand = Plus / Minus
Query: 411 cagacaagcaacgtaaccaacaagaatgaccccaagtctatcaactctagggtcttcatt 470
||||| ||||| || ||||| ||||||||||||||||| ||||||||| | || ||||||
Sbjct: 57539553 cagaccagcaatgtcaccaataagaatgaccccaagtccatcaactctcgagttttcatt 57539494
Query: 471 ggaaacctcaacacagcc 488
||||| || || ||||||
Sbjct: 57539493 ggaaatctaaatacagcc 57539476
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: 26,131,447
Number of extensions: 410
Number of successful extensions: 410
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 410
Number of HSP's successfully gapped: 10
Length of query: 1033
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1012
Effective length of database: 2,808,413,156
Effective search space: 2842114113872
Effective search space used: 2842114113872
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)