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-013445
(1025 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_001076868.1| mRNA turnover protein 4 homolog [Bos taurus]. 429 e-120
Alignment gi|NP_001012700.1| 60S acidic ribosomal protein P0 [Bos taurus]. 57 3e-08
>ref|NP_001076868.1| mRNA turnover protein 4 homolog [Bos taurus].
Length = 239
Score = 429 bits (1103), Expect = e-120
Identities = 209/219 (95%), Positives = 216/219 (98%)
Frame = +2
Query: 44 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 223
MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYK+LFIFSVANMRNSKLKDIRNAW
Sbjct: 1 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKYLFIFSVANMRNSKLKDIRNAW 60
Query: 224 KHSRMFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 403
KHSRMFFGKNKVMMVALGRSP DEY+DNLHQVSKKLRGEVGLLFTNRTKEEV+EWFTKY
Sbjct: 61 KHSRMFFGKNKVMMVALGRSPSDEYKDNLHQVSKKLRGEVGLLFTNRTKEEVDEWFTKYT 120
Query: 404 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 583
EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPT LKKGVVTLLSDYEVCKEGD
Sbjct: 121 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTALKKGVVTLLSDYEVCKEGD 180
Query: 584 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEMG 700
VLTPEQAR+LKLFGYEMAEFKV+I+YMWDAQSGRFQ+MG
Sbjct: 181 VLTPEQARVLKLFGYEMAEFKVSIKYMWDAQSGRFQQMG 219
>ref|NP_001012700.1| 60S acidic ribosomal protein P0 [Bos taurus].
Length = 318
Score = 57.0 bits (136), Expect = 3e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LVIQQVFD 194
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: 40,673,162
Number of extensions: 1159247
Number of successful extensions: 4854
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4840
Number of HSP's successfully gapped: 2
Length of query: 341
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 238
Effective length of database: 14,273,310
Effective search space: 3397047780
Effective search space used: 3397047780
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)
Animal-Genome cDNA 20110601C-013445
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-013445
(1025 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_544532.2| PREDICTED: similar to ribosomal protein P0-like... 426 e-119
Alignment gi|XP_866881.1| PREDICTED: similar to ribosomal protein P0-like... 301 7e-82
Alignment gi|XP_539413.2| PREDICTED: similar to Suppressor Of Clr family ... 96 7e-20
Alignment gi|XP_535894.1| PREDICTED: similar to 60S acidic ribosomal prot... 57 4e-08
Alignment gi|XP_858251.1| PREDICTED: similar to 60S acidic ribosomal prot... 57 4e-08
Alignment gi|XP_858205.1| PREDICTED: similar to 60S acidic ribosomal prot... 57 4e-08
Alignment gi|XP_849185.1| PREDICTED: similar to 60S acidic ribosomal prot... 57 4e-08
Alignment gi|XP_863145.1| PREDICTED: similar to 60S acidic ribosomal prot... 57 4e-08
Alignment gi|XP_863120.1| PREDICTED: similar to 60S acidic ribosomal prot... 57 4e-08
Alignment gi|XP_863097.1| PREDICTED: similar to 60S acidic ribosomal prot... 57 4e-08
>ref|XP_544532.2| PREDICTED: similar to ribosomal protein P0-like protein isoform 1
[Canis familiaris].
Length = 240
Score = 426 bits (1095), Expect = e-119
Identities = 207/219 (94%), Positives = 215/219 (98%)
Frame = +2
Query: 44 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 223
MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYK+LFIFSVANMRNSKLKDIRNAW
Sbjct: 1 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKYLFIFSVANMRNSKLKDIRNAW 60
Query: 224 KHSRMFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 403
KHSRMFFGKNKVMMVALGRSP DEY+DNLHQVSKKL+GEVGLLFTNRTKEEVNEWFTKY
Sbjct: 61 KHSRMFFGKNKVMMVALGRSPADEYKDNLHQVSKKLKGEVGLLFTNRTKEEVNEWFTKYT 120
Query: 404 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 583
EMD+ARAGNKATFTV LDPGPLEQFPHSMEPQLRQLGLPT LK+GVVTLLSD+EVCKEGD
Sbjct: 121 EMDFARAGNKATFTVTLDPGPLEQFPHSMEPQLRQLGLPTALKRGVVTLLSDHEVCKEGD 180
Query: 584 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEMG 700
VLTPEQAR+LKLFGYEMAEFKVTIRYMWDAQSGRFQ+MG
Sbjct: 181 VLTPEQARVLKLFGYEMAEFKVTIRYMWDAQSGRFQQMG 219
>ref|XP_866881.1| PREDICTED: similar to ribosomal protein P0-like protein isoform 2
[Canis familiaris].
Length = 176
Score = 301 bits (771), Expect = 7e-82
Identities = 144/155 (92%), Positives = 151/155 (97%)
Frame = +2
Query: 236 MFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDY 415
MFFGKNKVMMVALGRSP DEY+DNLHQVSKKL+GEVGLLFTNRTKEEVNEWFTKY EMD+
Sbjct: 1 MFFGKNKVMMVALGRSPADEYKDNLHQVSKKLKGEVGLLFTNRTKEEVNEWFTKYTEMDF 60
Query: 416 ARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTP 595
ARAGNKATFTV LDPGPLEQFPHSMEPQLRQLGLPT LK+GVVTLLSD+EVCKEGDVLTP
Sbjct: 61 ARAGNKATFTVTLDPGPLEQFPHSMEPQLRQLGLPTALKRGVVTLLSDHEVCKEGDVLTP 120
Query: 596 EQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEMG 700
EQAR+LKLFGYEMAEFKVTIRYMWDAQSGRFQ+MG
Sbjct: 121 EQARVLKLFGYEMAEFKVTIRYMWDAQSGRFQQMG 155
>ref|XP_539413.2| PREDICTED: similar to Suppressor Of Clr family member (soc-2)
[Canis familiaris].
Length = 971
Score = 95.5 bits (236), Expect = 7e-20
Identities = 46/81 (56%), Positives = 58/81 (71%)
Frame = -2
Query: 277 TQGHHHHFVFAKKHPAVLPGVADVLELAVPHVGHGEDEEKLVRVYTFPQLFYQVLFQFQA 98
TQGHH H VFAKKH AVLP VADV +LAV HVGHGEDE+ LVR++ P+LFYQ LFQF+
Sbjct: 5 TQGHHCHLVFAKKHLAVLPSVADVFQLAVVHVGHGEDEKVLVRIHALPKLFYQALFQFKP 64
Query: 97 LLGSFG*GNFLVALGFGHRVA 35
L L++L ++++
Sbjct: 65 FLAVLVKETLLLSLDLPNKMS 85
>ref|XP_535894.1| PREDICTED: similar to 60S acidic ribosomal protein P0 (L10E)
isoform 1 [Canis familiaris].
Length = 317
Score = 56.6 bits (135), Expect = 4e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_858251.1| PREDICTED: similar to 60S acidic ribosomal protein P0 (L10E)
isoform 7 [Canis familiaris].
Length = 317
Score = 56.6 bits (135), Expect = 4e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_858205.1| PREDICTED: similar to 60S acidic ribosomal protein P0 (L10E)
isoform 6 [Canis familiaris].
Length = 317
Score = 56.6 bits (135), Expect = 4e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_849185.1| PREDICTED: similar to 60S acidic ribosomal protein P0 (L10E)
isoform 2 [Canis familiaris].
Length = 317
Score = 56.6 bits (135), Expect = 4e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_863145.1| PREDICTED: similar to 60S acidic ribosomal protein P0 (L10E)
isoform 14 [Canis familiaris].
Length = 317
Score = 56.6 bits (135), Expect = 4e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_863120.1| PREDICTED: similar to 60S acidic ribosomal protein P0 (L10E)
isoform 13 [Canis familiaris].
Length = 317
Score = 56.6 bits (135), Expect = 4e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_863097.1| PREDICTED: similar to 60S acidic ribosomal protein P0 (L10E)
isoform 12 [Canis familiaris].
Length = 317
Score = 56.6 bits (135), Expect = 4e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
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: 42,386,244
Number of extensions: 1192661
Number of successful extensions: 5269
Number of sequences better than 1.0e-05: 14
Number of HSP's gapped: 5249
Number of HSP's successfully gapped: 14
Length of query: 341
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 238
Effective length of database: 15,440,896
Effective search space: 3674933248
Effective search space used: 3674933248
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-013445
(1025 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001230644.1| mRNA turnover 4 homolog [Sus scrofa]. 445 e-125
Alignment gi|NP_001092068.1| 60S acidic ribosomal protein P0 [Sus scrofa]. 57 2e-08
>ref|NP_001230644.1| mRNA turnover 4 homolog [Sus scrofa].
Length = 241
Score = 445 bits (1144), Expect = e-125
Identities = 218/219 (99%), Positives = 219/219 (100%)
Frame = +2
Query: 44 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 223
MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW
Sbjct: 1 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 60
Query: 224 KHSRMFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 403
KHSRMFFGKNKVMMVALGRSPC+EYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG
Sbjct: 61 KHSRMFFGKNKVMMVALGRSPCEEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 120
Query: 404 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 583
EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD
Sbjct: 121 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 180
Query: 584 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEMG 700
VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEMG
Sbjct: 181 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEMG 219
>ref|NP_001092068.1| 60S acidic ribosomal protein P0 [Sus scrofa].
Length = 318
Score = 56.6 bits (135), Expect = 2e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
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: 26,247,663
Number of extensions: 746406
Number of successful extensions: 3074
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 3069
Number of HSP's successfully gapped: 2
Length of query: 341
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 241
Effective length of database: 8,854,232
Effective search space: 2133869912
Effective search space used: 2133869912
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-013445
(1025 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_076025.1| mRNA turnover protein 4 homolog [Mus musculus]. 414 e-116
Alignment gi|XP_001480610.1| PREDICTED: mRNA turnover protein 4 homolog i... 414 e-116
Alignment gi|XP_001004798.1| PREDICTED: mRNA turnover protein 4 homolog [... 412 e-115
Alignment gi|NP_031501.1| 60S acidic ribosomal protein P0 [Mus musculus]. 57 3e-08
Alignment gi|XP_996602.1| PREDICTED: 60S acidic ribosomal protein P0-like... 56 4e-08
Alignment gi|XP_003086742.1| PREDICTED: 60S acidic ribosomal protein P0-l... 56 4e-08
>ref|NP_076025.1| mRNA turnover protein 4 homolog [Mus musculus].
Length = 238
Score = 414 bits (1065), Expect = e-116
Identities = 205/218 (94%), Positives = 212/218 (97%)
Frame = +2
Query: 44 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 223
MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYK+LFIFSVANMRNSKLKDIRNAW
Sbjct: 1 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKYLFIFSVANMRNSKLKDIRNAW 60
Query: 224 KHSRMFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 403
KHSRMFFGKNKVMMVALGRSP DEY+DNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKY
Sbjct: 61 KHSRMFFGKNKVMMVALGRSPSDEYKDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYT 120
Query: 404 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 583
EMD+ARAGNKAT TV+LDPGPL+QFPHSMEPQLRQLGLPT LKKGVVTLLSDYEVCKEGD
Sbjct: 121 EMDFARAGNKATLTVSLDPGPLKQFPHSMEPQLRQLGLPTALKKGVVTLLSDYEVCKEGD 180
Query: 584 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEM 697
VLTPEQARIL LFGYEMAEFKV I+YMWDAQSGRFQ+M
Sbjct: 181 VLTPEQARIL-LFGYEMAEFKVIIKYMWDAQSGRFQQM 217
>ref|XP_001480610.1| PREDICTED: mRNA turnover protein 4 homolog isoform 2 [Mus
musculus].
Length = 239
Score = 414 bits (1065), Expect = e-116
Identities = 203/218 (93%), Positives = 213/218 (97%)
Frame = +2
Query: 44 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 223
MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYK+LFIFSVANMRNSKLKDIRNAW
Sbjct: 1 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKYLFIFSVANMRNSKLKDIRNAW 60
Query: 224 KHSRMFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 403
KHSRMFFGKNKVMMVALGRSP DEY+D+LHQVSKKLRGEVGLLFTNRTKEEVNEWFTKY
Sbjct: 61 KHSRMFFGKNKVMMVALGRSPSDEYKDDLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYT 120
Query: 404 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 583
EMD+ARAGNKAT TV+LDPGPL+QFPHSME QLRQLGLPT L+KGVVTLLSDYEVCKEGD
Sbjct: 121 EMDFARAGNKATLTVSLDPGPLKQFPHSMELQLRQLGLPTALEKGVVTLLSDYEVCKEGD 180
Query: 584 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEM 697
VLTPEQARILKLFGYEMAEFKVTI+YMWDAQSG+FQ+M
Sbjct: 181 VLTPEQARILKLFGYEMAEFKVTIKYMWDAQSGQFQQM 218
>ref|XP_001004798.1| PREDICTED: mRNA turnover protein 4 homolog [Mus musculus].
Length = 239
Score = 412 bits (1059), Expect = e-115
Identities = 203/218 (93%), Positives = 212/218 (97%)
Frame = +2
Query: 44 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 223
MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYK+LFIFSVANMRNSKLKDIRNAW
Sbjct: 1 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKYLFIFSVANMRNSKLKDIRNAW 60
Query: 224 KHSRMFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 403
KHSRMFFGKNKVMMVALGRSP DEY+D+LHQVSKKLRGEVGLLFTNRTKEEVNEWFTKY
Sbjct: 61 KHSRMFFGKNKVMMVALGRSPSDEYKDDLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYT 120
Query: 404 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 583
EMD+ARAGNKAT TV+LDPGPL+QFPHSME QLRQLGLPT L+KGVVTLLSDYEVCKEGD
Sbjct: 121 EMDFARAGNKATLTVSLDPGPLKQFPHSMELQLRQLGLPTALEKGVVTLLSDYEVCKEGD 180
Query: 584 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEM 697
VLTPEQARILKLFG EMAEFKVTI+YMWDAQSGRFQ+M
Sbjct: 181 VLTPEQARILKLFGDEMAEFKVTIKYMWDAQSGRFQQM 218
>ref|NP_031501.1| 60S acidic ribosomal protein P0 [Mus musculus].
Length = 317
Score = 56.6 bits (135), Expect = 3e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_996602.1| PREDICTED: 60S acidic ribosomal protein P0-like [Mus musculus].
Length = 317
Score = 56.2 bits (134), Expect = 4e-08
Identities = 45/188 (23%), Positives = 81/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISSGTIEILSDVQLIKTGDKVRASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
>ref|XP_003086742.1| PREDICTED: 60S acidic ribosomal protein P0-like [Mus musculus].
Length = 317
Score = 56.2 bits (134), Expect = 4e-08
Identities = 45/188 (23%), Positives = 81/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISSGTIEILSDVQLIKTGDKVRASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LIIQQVFD 194
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: 35,050,746
Number of extensions: 967820
Number of successful extensions: 3869
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 3851
Number of HSP's successfully gapped: 6
Length of query: 341
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 239
Effective length of database: 12,553,887
Effective search space: 3000378993
Effective search space used: 3000378993
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-013445
(1025 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_057267.2| mRNA turnover protein 4 homolog [Homo sapiens]. 425 e-119
Alignment gi|NP_000993.1| 60S acidic ribosomal protein P0 [Homo sapiens]. 57 3e-08
Alignment gi|NP_444505.1| 60S acidic ribosomal protein P0 [Homo sapiens]. 57 3e-08
>ref|NP_057267.2| mRNA turnover protein 4 homolog [Homo sapiens].
Length = 239
Score = 425 bits (1093), Expect = e-119
Identities = 206/219 (94%), Positives = 215/219 (98%)
Frame = +2
Query: 44 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAW 223
MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYK+LFIFSVANMRNSKLKDIRNAW
Sbjct: 1 MPKSKRDKKVSLTKTAKKGLELKQNLIEELRKCVDTYKYLFIFSVANMRNSKLKDIRNAW 60
Query: 224 KHSRMFFGKNKVMMVALGRSPCDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYG 403
KHSRMFFGKNKVMMVALGRSP DEY+DNLHQVSK+LRGEVGLLFTNRTKEEVNEWFTKY
Sbjct: 61 KHSRMFFGKNKVMMVALGRSPSDEYKDNLHQVSKRLRGEVGLLFTNRTKEEVNEWFTKYT 120
Query: 404 EMDYARAGNKATFTVNLDPGPLEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGD 583
EMDYARAGNKA FTV+LDPGPLEQFPHSMEPQLRQLGLPT LK+GVVTLLSDYEVCKEGD
Sbjct: 121 EMDYARAGNKAAFTVSLDPGPLEQFPHSMEPQLRQLGLPTALKRGVVTLLSDYEVCKEGD 180
Query: 584 VLTPEQARILKLFGYEMAEFKVTIRYMWDAQSGRFQEMG 700
VLTPEQAR+LKLFGYEMAEFKVTI+YMWD+QSGRFQ+MG
Sbjct: 181 VLTPEQARVLKLFGYEMAEFKVTIKYMWDSQSGRFQQMG 219
>ref|NP_000993.1| 60S acidic ribosomal protein P0 [Homo sapiens].
Length = 317
Score = 57.0 bits (136), Expect = 3e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LVIQQVFD 194
>ref|NP_444505.1| 60S acidic ribosomal protein P0 [Homo sapiens].
Length = 317
Score = 57.0 bits (136), Expect = 3e-08
Identities = 45/188 (23%), Positives = 82/188 (43%), Gaps = 1/188 (0%)
Frame = +2
Query: 110 KQNLIEELRKCVDTYKFLFIFSVANMRNSKLKDIRNAWKHSRM-FFGKNKVMMVALGRSP 286
K N ++ + +D Y FI N+ + +++ IR + + + GKN +M A+
Sbjct: 10 KSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHL 69
Query: 287 CDEYRDNLHQVSKKLRGEVGLLFTNRTKEEVNEWFTKYGEMDYARAGNKATFTVNLDPGP 466
E L ++ +RG VG +FT E+ + ARAG A V + P
Sbjct: 70 --ENNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTV-PAQ 126
Query: 467 LEQFPHSMEPQLRQLGLPTTLKKGVVTLLSDYEVCKEGDVLTPEQARILKLFGYEMAEFK 646
+ LG+ T + +G + +LSD ++ K GD + +A +L + F
Sbjct: 127 NTGLGPEKTSFFQALGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFG 186
Query: 647 VTIRYMWD 670
+ I+ ++D
Sbjct: 187 LVIQQVFD 194
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: 41,513,160
Number of extensions: 1167138
Number of successful extensions: 4584
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 4581
Number of HSP's successfully gapped: 3
Length of query: 341
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 238
Effective length of database: 14,901,872
Effective search space: 3546645536
Effective search space used: 3546645536
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-013445
(1025 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_Chr06 731 0.0
Sscrofa_Chr03 289 2e-75
>Sscrofa_Chr06
|| Length = 157765593
Score = 731 bits (369), Expect = 0.0
Identities = 406/415 (97%), Gaps = 3/415 (0%)
Strand = Plus / Plus
Query: 613 gaagctctttgggtatgaaatggccgaattcaaggtgaccatcaggtacatgtgggatgc 672
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71815403 gaagctctttgggtatgaaatggccgaattcaaggtgaccatcaggtacatgtgggatgc 71815462
Query: 673 gcagtctgggaggttccaagagatgggcgacgacttgccagagagcgcgccagagtcgga 732
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71815463 gcagtctgggaggttccaagagatgggcgacgacttgccagagagcgcgccagagtcgga 71815522
Query: 733 ggaggagtcagaggaagacgacgacgacgacagctgatgggcgcctgggaccgccccgcc 792
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71815523 ggaggagtcagaggaagacgacgacgacgacagctgatgggcgcctgggaccgccccgcc 71815582
Query: 793 catcccaggtctcagcctgacgggaccacgtgggactgccgcttcctctagagggagcag 852
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71815583 catcccaggtctcagcctgacgggaccacgtgggactgccgcttcctctagagggagcag 71815642
Query: 853 cgtttgttctgtggatgaagacgcaggagggtgacagggacaggctctcttgataaataa 912
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71815643 cgtttgttctgtggatgaagacgcaggagggtgacagggacaggctctcttgataaataa 71815702
Query: 913 taaaagctttttggcagggtgtctccctgtagacagcaagagggacttcgcttgggaaga 972
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71815703 taaaagctttttggcagggtgtctccctgtagacagcaagagggacttcgcttgggaaga 71815762
Query: 973 annagctcggacttgtttgggact-ccaggattttg-tcacatcaagccagtttc 1025
| ||||||||||| ||||| ||||||||||| ||||||||||||||||||
Sbjct: 71815763 aagcctccggacttgttt-ggactcccaggattttgttcacatcaagccagtttc 71815816
Score = 305 bits (154), Expect = 3e-80
Identities = 154/154 (100%)
Strand = Plus / Plus
Query: 385 gtggttcacgaaatacggggagatggactacgcccgagcagggaacaaagcaacgttcac 444
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71814465 gtggttcacgaaatacggggagatggactacgcccgagcagggaacaaagcaacgttcac 71814524
Query: 445 cgtgaacctggacccggggcccctggagcagttccctcactccatggagcctcagctgag 504
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71814525 cgtgaacctggacccggggcccctggagcagttccctcactccatggagcctcagctgag 71814584
Query: 505 gcagctgggcctgcccactaccctcaagaaaggt 538
||||||||||||||||||||||||||||||||||
Sbjct: 71814585 gcagctgggcctgcccactaccctcaagaaaggt 71814618
Score = 212 bits (107), Expect = 3e-52
Identities = 107/107 (100%)
Strand = Plus / Plus
Query: 129 agctgcggaaatgtgtagacacgtacaagtttctcttcatcttctccgtggccaacatga 188
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71813123 agctgcggaaatgtgtagacacgtacaagtttctcttcatcttctccgtggccaacatga 71813182
Query: 189 ggaacagcaagctcaaggacatccgcaacgcctggaagcacagccgg 235
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71813183 ggaacagcaagctcaaggacatccgcaacgcctggaagcacagccgg 71813229
Score = 161 bits (81), Expect = 9e-37
Identities = 84/85 (98%)
Strand = Plus / Plus
Query: 234 ggatgttttttggcaaaaacaaagtgatgatggtggccttgggtcggagcccatgtgatg 293
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct: 71813789 ggatgttttttggcaaaaacaaagtgatgatggtggccttgggtcggagcccatgtgagg 71813848
Query: 294 agtacagagacaacctgcatcaggt 318
|||||||||||||||||||||||||
Sbjct: 71813849 agtacagagacaacctgcatcaggt 71813873
Score = 157 bits (79), Expect = 1e-35
Identities = 79/79 (100%)
Strand = Plus / Plus
Query: 535 aggtgtggtgaccctgctgtcagactacgaggtgtgcaaggagggcgacgtgctaacccc 594
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71815232 aggtgtggtgaccctgctgtcagactacgaggtgtgcaaggagggcgacgtgctaacccc 71815291
Query: 595 agagcaggcccgcatcctg 613
|||||||||||||||||||
Sbjct: 71815292 agagcaggcccgcatcctg 71815310
Score = 145 bits (73), Expect = 5e-32
Identities = 73/73 (100%)
Strand = Plus / Plus
Query: 315 aggttagcaagaagttgaggggtgaagtgggtctccttttcaccaaccgcacgaaggagg 374
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71814155 aggttagcaagaagttgaggggtgaagtgggtctccttttcaccaaccgcacgaaggagg 71814214
Query: 375 aagtaaacgagtg 387
|||||||||||||
Sbjct: 71814215 aagtaaacgagtg 71814227
Score = 133 bits (67), Expect = 2e-28
Identities = 70/71 (98%)
Strand = Plus / Plus
Query: 1 ctagcaggcagcaccgccttccgccgcacgtggctgcgacgcgatgcccaaatccaagcg 60
||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 71809896 ctagcaggcagcaccgcctaccgccgcacgtggctgcgacgcgatgcccaaatccaagcg 71809955
Query: 61 cgacaagaaag 71
|||||||||||
Sbjct: 71809956 cgacaagaaag 71809966
Score = 121 bits (61), Expect = 8e-25
Identities = 61/61 (100%)
Strand = Plus / Plus
Query: 70 agtttccctaaccaaaactgccaagaagggcttggaactgaaacagaacttgatagaaga 129
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71812160 agtttccctaaccaaaactgccaagaagggcttggaactgaaacagaacttgatagaaga 71812219
Query: 130 g 130
|
Sbjct: 71812220 g 71812220
>Sscrofa_Chr03
|| Length = 144787322
Score = 289 bits (146), Expect = 2e-75
Identities = 423/512 (82%), Gaps = 10/512 (1%)
Strand = Plus / Plus
Query: 74 tccctaaccaaaactgccaagaagggcttggaactgaaacagaacttgatagaagagctg 133
|||| |||| ||||||||||||| ||||||||||||||||||||||||| ||||| |||
Sbjct: 56330901 tccccaaccgaaactgccaagaaaggcttggaactgaaacagaacttgagagaagcgctc 56330960
Query: 134 cggaaatgtgtagacacgtacaagtttctcttcatcttctccgtggccaacatgaggaac 193
|||||||||| ||||| ||||| | ||||||||||||||| |||||||||||||||||
Sbjct: 56330961 tggaaatgtgtggacacatacaaataactcttcatcttctccatggccaacatgaggaac 56331020
Query: 194 agcaagctcaaggacatccgcaacgcctggaagcacagccggatgttttttggcaaaaac 253
|||||||| ||||||||| ||||| |||||||||||| |||||||| ||||||||||||
Sbjct: 56331021 agcaagctaaaggacatctgcaacacctggaagcacaatcggatgttctttggcaaaaac 56331080
Query: 254 aaagtgatgatggtggccttgggtcggagcccatgtgatgagtacagagacaacctgcat 313
||||||||||||||| |||| || || ||||||| ||||||| || || |||||||
Sbjct: 56331081 aaagtgatgatggtgcccttaggccgaagcccatccgatgagtgcaaag----cctgcat 56331136
Query: 314 caggttagcaagaagttgaggggtgaagtgggtctcc-ttttcaccaaccgcacgaagga 372
||||| |||||||||||||||| |||||| || |||| |||| || | | ||| |||||
Sbjct: 56331137 caggtcagcaagaagttgagggctgaagttggcctccttttttgcccatcacactaagga 56331196
Query: 373 ggaagtaaacgagtggttcacgaaatacggggagatggactacgcccgagcagggaacaa 432
| || | || |||||||||| ||||||| | |||||||| || | | | ||||||||
Sbjct: 56331197 gcaaatcaatgagtggttcatgaaatac-aacaaatggactatgctctaactgggaacaa 56331255
Query: 433 agcaacgttcaccgtgaacctggacccggggcccctggagcagttccctcactccatgga 492
||| || ||||| || |||||||| |||||||||||||| |||||||| ||| ||||
Sbjct: 56331256 agccactttcactaagagcctggacctggggcccctggagcgattccctcattccgtgga 56331315
Query: 493 gcctcagctgaggcagctg----ggcctgcccactaccctcaagaaaggtgtggtgaccc 548
||| ||||||| || || |||||||||||| ||||||| ||||||| ||||||
Sbjct: 56331316 gccagagctgagacacttgggctggcctgcccactgccctcaataaaggtggtgtgacct 56331375
Query: 549 tgctgtcagactacgaggtgtgcaaggagggc 580
| |||| ||| ||||||| ||||| |||||
Sbjct: 56331376 cgttgtccgaccacgaggtacgcaagaagggc 56331407
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: 26,815,835
Number of extensions: 157
Number of successful extensions: 157
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 155
Number of HSP's successfully gapped: 10
Length of query: 1025
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1004
Effective length of database: 2,808,413,156
Effective search space: 2819646808624
Effective search space used: 2819646808624
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)