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-008539
(863 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_776459.1| cytochrome b-245 light chain [Bos taurus]. 321 6e-88
>ref|NP_776459.1| cytochrome b-245 light chain [Bos taurus].
Length = 191
Score = 321 bits (822), Expect = 6e-88
Identities = 159/190 (83%), Positives = 168/190 (88%)
Frame = +1
Query: 73 QIEWAMWANEQALASGLILMTGGIVATAGQFTQWYLGTYSIAAGVLVCLLEYPRGRRTKG 252
QIEWAMWANEQALASGLIL+TGGIVATAGQFTQWYLG YSIAAGVLVCLLEYPRG+R+KG
Sbjct: 3 QIEWAMWANEQALASGLILITGGIVATAGQFTQWYLGAYSIAAGVLVCLLEYPRGKRSKG 62
Query: 253 STMERCGQKYMTKVVKAFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASGIYL 432
STMERCGQKY+T+VVK FGPL+RNYYIRAFLHLGL+VPAGFLLATILGTACLAIASGIYL
Sbjct: 63 STMERCGQKYLTRVVKLFGPLTRNYYIRAFLHLGLAVPAGFLLATILGTACLAIASGIYL 122
Query: 433 LAAIRGEQWTPIEPKPKERPQVGGTIKQXXXXXXXXXXXXXXXXXGEEAVAGVPTGGPQE 612
LAAIRGEQW+PIEPKPKERPQ+GGTIKQ EEA AGVPTGGPQE
Sbjct: 123 LAAIRGEQWSPIEPKPKERPQIGGTIKQPPSNPPPRPPAEARKKPSEEA-AGVPTGGPQE 181
Query: 613 NPMPVTDEVV 642
NPMPV DEVV
Sbjct: 182 NPMPVNDEVV 191
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: 36,963,677
Number of extensions: 1264546
Number of successful extensions: 6202
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 6149
Number of HSP's successfully gapped: 1
Length of query: 287
Length of database: 17,681,374
Length adjustment: 101
Effective length of query: 186
Effective length of database: 14,339,486
Effective search space: 2667144396
Effective search space used: 2667144396
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-008539
(863 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|NP_001093760.1| cytochrome b-245, alpha polypeptide [Canis l... 294 8e-80
>ref|NP_001093760.1| cytochrome b-245, alpha polypeptide [Canis lupus familiaris].
Length = 195
Score = 294 bits (752), Expect = 8e-80
Identities = 151/194 (77%), Positives = 157/194 (80%), Gaps = 4/194 (2%)
Frame = +1
Query: 73 QIEWAMWANEQALASGLILMTGGIVATAGQFTQWYLGTYSIAAGVLVCLLEYPRGRRTKG 252
QIEWAMWANEQALASGLIL+ GGIVATAGQFT+WY G YSI AGV VCLLEYPRG+R KG
Sbjct: 3 QIEWAMWANEQALASGLILIMGGIVATAGQFTKWYFGAYSIGAGVFVCLLEYPRGKRRKG 62
Query: 253 STMERCGQKYMTKVVKAFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASGIYL 432
STMERCGQKYMTKVVK FGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIAS IYL
Sbjct: 63 STMERCGQKYMTKVVKVFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASSIYL 122
Query: 433 LAAIRGEQWTPIEPKPKERPQVGGTIKQXXXXXXXXXXXXXXXXXGEEAVA----GVPTG 600
LAA GEQW PIEP+PKERPQVGGTIKQ EE A GV +G
Sbjct: 123 LAAYHGEQWIPIEPQPKERPQVGGTIKQPPSNPPPRPPAEARKKPSEEEEAAGAVGV-SG 181
Query: 601 GPQENPMPVTDEVV 642
GPQENP+PV DEVV
Sbjct: 182 GPQENPVPVIDEVV 195
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: 38,520,078
Number of extensions: 1305842
Number of successful extensions: 6779
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 6682
Number of HSP's successfully gapped: 1
Length of query: 287
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 185
Effective length of database: 15,474,232
Effective search space: 2862732920
Effective search space used: 2862732920
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-008539
(863 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_999432.1| cytochrome b-245 light chain [Sus scrofa]. 330 5e-91
>ref|NP_999432.1| cytochrome b-245 light chain [Sus scrofa].
Length = 192
Score = 330 bits (847), Expect = 5e-91
Identities = 166/190 (87%), Positives = 168/190 (88%)
Frame = +1
Query: 73 QIEWAMWANEQALASGLILMTGGIVATAGQFTQWYLGTYSIAAGVLVCLLEYPRGRRTKG 252
QIEWAMWANEQALASGLILMTGGIVATAGQFTQWYLGTYSIAAGVLVCLLEYPRGRRTKG
Sbjct: 3 QIEWAMWANEQALASGLILMTGGIVATAGQFTQWYLGTYSIAAGVLVCLLEYPRGRRTKG 62
Query: 253 STMERCGQKYMTKVVKAFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASGIYL 432
STMERC QKYMTKVVKAFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASGIYL
Sbjct: 63 STMERCEQKYMTKVVKAFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASGIYL 122
Query: 433 LAAIRGEQWTPIEPKPKERPQVGGTIKQXXXXXXXXXXXXXXXXXGEEAVAGVPTGGPQE 612
LAAIRGEQWTPIEPKPKERPQVGGTIKQ GEEAVAGVP G P++
Sbjct: 123 LAAIRGEQWTPIEPKPKERPQVGGTIKQPPSNPPPRPPPEARKKPGEEAVAGVPRGAPRK 182
Query: 613 NPMPVTDEVV 642
P PVTDEVV
Sbjct: 183 TPCPVTDEVV 192
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: 23,969,298
Number of extensions: 826075
Number of successful extensions: 4215
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4188
Number of HSP's successfully gapped: 1
Length of query: 287
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 189
Effective length of database: 8,904,026
Effective search space: 1682860914
Effective search space used: 1682860914
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 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-008539
(863 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_031832.2| cytochrome b-245 light chain [Mus musculus]. 293 2e-79
>ref|NP_031832.2| cytochrome b-245 light chain [Mus musculus].
Length = 192
Score = 293 bits (749), Expect = 2e-79
Identities = 146/190 (76%), Positives = 153/190 (80%)
Frame = +1
Query: 73 QIEWAMWANEQALASGLILMTGGIVATAGQFTQWYLGTYSIAAGVLVCLLEYPRGRRTKG 252
QIEWAMWANEQALASGLIL+TGGIVATAG+FTQWY G YSIAAGVL+CLLEYPRG+R KG
Sbjct: 3 QIEWAMWANEQALASGLILITGGIVATAGRFTQWYFGAYSIAAGVLICLLEYPRGKRKKG 62
Query: 253 STMERCGQKYMTKVVKAFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASGIYL 432
STMERCGQKY+T VVK FGPL+RNYY+RA LH LSVPAGFLLATILGT CLAIAS IYL
Sbjct: 63 STMERCGQKYLTSVVKLFGPLTRNYYVRAALHFLLSVPAGFLLATILGTVCLAIASVIYL 122
Query: 433 LAAIRGEQWTPIEPKPKERPQVGGTIKQXXXXXXXXXXXXXXXXXGEEAVAGVPTGGPQE 612
LAAIRGEQWTPIEPKPKERPQVGGTIKQ E GGPQ
Sbjct: 123 LAAIRGEQWTPIEPKPKERPQVGGTIKQPPTNPPPRPPAEVRKKPSEGEEEAASAGGPQV 182
Query: 613 NPMPVTDEVV 642
NPMPVTDEVV
Sbjct: 183 NPMPVTDEVV 192
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: 31,400,572
Number of extensions: 1022069
Number of successful extensions: 4285
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4253
Number of HSP's successfully gapped: 1
Length of query: 287
Length of database: 15,617,559
Length adjustment: 100
Effective length of query: 187
Effective length of database: 12,613,959
Effective search space: 2358810333
Effective search space used: 2358810333
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-008539
(863 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_000092.2| cytochrome b-245 light chain [Homo sapiens]. 293 2e-79
>ref|NP_000092.2| cytochrome b-245 light chain [Homo sapiens].
Length = 195
Score = 293 bits (749), Expect = 2e-79
Identities = 147/193 (76%), Positives = 156/193 (80%), Gaps = 3/193 (1%)
Frame = +1
Query: 73 QIEWAMWANEQALASGLILMTGGIVATAGQFTQWYLGTYSIAAGVLVCLLEYPRGRRTKG 252
QIEWAMWANEQALASGLIL+TGGIVATAG+FTQWY G YSI AGV VCLLEYPRG+R KG
Sbjct: 3 QIEWAMWANEQALASGLILITGGIVATAGRFTQWYFGAYSIVAGVFVCLLEYPRGKRKKG 62
Query: 253 STMERCGQKYMTKVVKAFGPLSRNYYIRAFLHLGLSVPAGFLLATILGTACLAIASGIYL 432
STMER GQKYMT VVK FGP +RNYY+RA LHL LSVPAGFLLATILGTACLAIASGIYL
Sbjct: 63 STMERWGQKYMTAVVKLFGPFTRNYYVRAVLHLLLSVPAGFLLATILGTACLAIASGIYL 122
Query: 433 LAAIRGEQWTPIEPKPKERPQVGGTIKQXXXXXXXXXXXXXXXXXGEE---AVAGVPTGG 603
LAA+RGEQWTPIEPKP+ERPQ+GGTIKQ EE AG P GG
Sbjct: 123 LAAVRGEQWTPIEPKPRERPQIGGTIKQPPSNPPPRPPAEARKKPSEEEAAVAAGGPPGG 182
Query: 604 PQENPMPVTDEVV 642
PQ NP+PVTDEVV
Sbjct: 183 PQVNPIPVTDEVV 195
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: 37,542,365
Number of extensions: 1256755
Number of successful extensions: 5967
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5889
Number of HSP's successfully gapped: 1
Length of query: 287
Length of database: 18,297,164
Length adjustment: 101
Effective length of query: 186
Effective length of database: 14,967,800
Effective search space: 2784010800
Effective search space used: 2784010800
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-008539
(863 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL892479.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 224 6e-56
gb|GL892701.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 212 2e-52
gb|GL896617.1| Sus scrofa unplaced genomic scaffold chrU_scaffold94 149 3e-33
gb|GL896417.1| Sus scrofa unplaced genomic scaffold chrU_scaffold76 139 3e-30
>gb|GL892479.1| Sus scrofa unplaced genomic scaffold chrU_scaffold134
Length = 172
Score = 224 bits (113), Expect = 6e-56
Identities = 113/113 (100%)
Strand = Plus / Minus
Query: 733 ggggcacccctttcctgcagtcccctttcgggttgactggtagccgtgctgtcatctttc 792
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 172 ggggcacccctttcctgcagtcccctttcgggttgactggtagccgtgctgtcatctttc 113
Query: 793 tagggggccttggggtcttggtgaatcagctgtttcatgaaatatgtatctgg 845
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 112 tagggggccttggggtcttggtgaatcagctgtttcatgaaatatgtatctgg 60
>gb|GL892701.1| Sus scrofa unplaced genomic scaffold chrU_scaffold154
Length = 193
Score = 212 bits (107), Expect = 2e-52
Identities = 107/107 (100%)
Strand = Plus / Minus
Query: 18 gggtggaagggtctgagctgcgtctggtggtgctggcagtgccatcgccatgggacagat 77
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 193 gggtggaagggtctgagctgcgtctggtggtgctggcagtgccatcgccatgggacagat 134
Query: 78 cgagtgggccatgtgggccaacgagcaggcgctggcgtctggcctga 124
|||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 133 cgagtgggccatgtgggccaacgagcaggcgctggcgtctggcctga 87
>gb|GL896617.1| Sus scrofa unplaced genomic scaffold chrU_scaffold94
Length = 146
Score = 149 bits (75), Expect = 3e-33
Identities = 75/75 (100%)
Strand = Plus / Plus
Query: 195 tgcggcgggcgtgttggtctgcctgctggagtacccccgcgggcggaggaccaagggctc 254
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 17 tgcggcgggcgtgttggtctgcctgctggagtacccccgcgggcggaggaccaagggctc 76
Query: 255 caccatggagcgctg 269
|||||||||||||||
Sbjct: 77 caccatggagcgctg 91
>gb|GL896417.1| Sus scrofa unplaced genomic scaffold chrU_scaffold76
Length = 132
Score = 139 bits (70), Expect = 3e-30
Identities = 70/70 (100%)
Strand = Plus / Plus
Query: 125 tcctcatgacagggggcatcgtggccacggccggccagttcacgcagtggtacctgggca 184
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 35 tcctcatgacagggggcatcgtggccacggccggccagttcacgcagtggtacctgggca 94
Query: 185 cctactccat 194
||||||||||
Sbjct: 95 cctactccat 104
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: 18,779,158
Number of extensions: 210
Number of successful extensions: 210
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 210
Number of HSP's successfully gapped: 4
Length of query: 863
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 842
Effective length of database: 2,808,413,156
Effective search space: 2364683877352
Effective search space used: 2364683877352
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)