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-003518
(1043 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_001069483.1| 28S ribosomal protein S31, mitochondrial pre... 391 e-109
>ref|NP_001069483.1| 28S ribosomal protein S31, mitochondrial precursor [Bos taurus].
Length = 386
Score = 391 bits (1004), Expect = e-109
Identities = 200/306 (65%), Positives = 229/306 (74%)
Frame = +3
Query: 90 MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVRTENNIQRYFGTNNLVYSK 269
M PRVSAV+ CS GPE GTVRT+ NIQRYFGTN+++YSK
Sbjct: 1 MFPRVSAVLPFRPLSRLPLCSAGPEASAATVVPLASPHGTVRTKCNIQRYFGTNSVIYSK 60
Query: 270 KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 449
KD++S P CEISKETE++GS KEN KKDL+NIIKGMKVELSTVNVQTTKP N+ QLK+LE
Sbjct: 61 KDDKSVPACEISKETENQGSTKENKKKDLVNIIKGMKVELSTVNVQTTKPPNRGQLKSLE 120
Query: 450 TAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQLQKHEEDSRA 629
AI R++K+PED PQK PFD++ TKSELLRQL++HEEDS+A
Sbjct: 121 AAIRRLQKSPEDAPQK-SKSLSPELVAAATAVADSLPFDKQTTKSELLRQLRQHEEDSKA 179
Query: 630 QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 809
QKDGEKPKISFSNIISDMKVARS+TAR STRPVHQIQFDEG DDF D+E+T +L+K FRK
Sbjct: 180 QKDGEKPKISFSNIISDMKVARSSTARASTRPVHQIQFDEGADDFVDREETADLRKRFRK 239
Query: 810 NIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKKG 989
NIFKG+RLNIF SLWD+EFAKQLAAVTE+PFQNGFEEMIQWTK+G
Sbjct: 240 NIFKGKRLNIFELKPVTEEAPETEAAPSLWDVEFAKQLAAVTEQPFQNGFEEMIQWTKEG 299
Query: 990 KLWEFP 1007
KLWEFP
Sbjct: 300 KLWEFP 305
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: 29,533,875
Number of extensions: 624993
Number of successful extensions: 1961
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1957
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 244
Effective length of database: 14,273,310
Effective search space: 3482687640
Effective search space used: 3482687640
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-003518
(1043 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_534486.1| PREDICTED: similar to 28S ribosomal protein S31... 349 3e-96
>ref|XP_534486.1| PREDICTED: similar to 28S ribosomal protein S31, mitochondrial
precursor (S31mt) (MRP-S31) (Imogen 38) [Canis
familiaris].
Length = 386
Score = 349 bits (895), Expect = 3e-96
Identities = 186/306 (60%), Positives = 213/306 (69%)
Frame = +3
Query: 90 MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVRTENNIQRYFGTNNLVYSK 269
MLPRVSAV CSGG E T RT+NN+QRYFGTNN + SK
Sbjct: 1 MLPRVSAVRPLRPLARFPLCSGGSEAPAAATVLLGAPHATARTKNNVQRYFGTNNTICSK 60
Query: 270 KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 449
KDEQ EISKETES+ SVKEN+KKDLL IIKGMK+ELSTVNVQTTKPS+ RQLK++E
Sbjct: 61 KDEQPASMHEISKETESQESVKENTKKDLLGIIKGMKIELSTVNVQTTKPSSTRQLKSVE 120
Query: 450 TAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQLQKHEEDSRA 629
I +++KAP D P+KR PFD++ TKSELLRQLQ+HEE S+A
Sbjct: 121 ATINKLQKAPGDAPKKRTKSLSPELVAAASAIADFLPFDKQTTKSELLRQLQQHEEVSKA 180
Query: 630 QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 809
QK+G + KIS SNIISDMKVA+SAT RVSTRPVHQIQFDEG+DD+ Q KT ++KKS RK
Sbjct: 181 QKNGGRAKISVSNIISDMKVAKSATIRVSTRPVHQIQFDEGSDDYMSQ-KTSDVKKSLRK 239
Query: 810 NIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKKG 989
N+ KG+RLNIF SLWDIEFAKQLAAV E+P QNGF EMIQWTK G
Sbjct: 240 NMLKGKRLNIFDLKAVTEETSETETTPSLWDIEFAKQLAAVNEQPLQNGFAEMIQWTKDG 299
Query: 990 KLWEFP 1007
KLWEFP
Sbjct: 300 KLWEFP 305
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: 30,810,110
Number of extensions: 639378
Number of successful extensions: 2111
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2107
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 243
Effective length of database: 15,407,560
Effective search space: 3744037080
Effective search space used: 3744037080
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-003518
(1043 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_005821.2| 28S ribosomal protein S31, mitochondrial precur... 321 8e-88
>ref|NP_005821.2| 28S ribosomal protein S31, mitochondrial precursor [Homo sapiens].
Length = 395
Score = 321 bits (822), Expect = 8e-88
Identities = 178/316 (56%), Positives = 211/316 (66%), Gaps = 10/316 (3%)
Frame = +3
Query: 90 MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVR---------TENNIQRYF 242
M PRVS + SG PE GTVR T+NNIQRYF
Sbjct: 1 MFPRVSTFLPLRPLSRHPLSSGSPETSAAAIMLLTVRHGTVRYRSSALLARTKNNIQRYF 60
Query: 243 GTNNLVYSKKDEQSGPTCEISKET-ESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKP 419
GTN+++ SKKD+QS T E SKET ES+ S KEN+KKDLL IIKGMKVELSTVNV+TTKP
Sbjct: 61 GTNSVICSKKDKQSVRTEETSKETSESQDSEKENTKKDLLGIIKGMKVELSTVNVRTTKP 120
Query: 420 SNKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQ 599
+R LK+LE +GR+++A E P+KR PFD++ TKSELL Q
Sbjct: 121 PKRRPLKSLEATLGRLRRATEYAPKKRIEPLSPELVAAASAVADSLPFDKQTTKSELLSQ 180
Query: 600 LQKHEEDSRAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEK 779
LQ+HEE+SRAQ+D ++PKISFSNIISDMKVARSATARV +RP +IQFDEG D++ QEK
Sbjct: 181 LQQHEEESRAQRDAKRPKISFSNIISDMKVARSATARVRSRPELRIQFDEGYDNYPGQEK 240
Query: 780 TLNLKKSFRKNIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGF 959
T +LKK RKNIF G+RLNIF SLWD+EFAKQLA V E+P QNGF
Sbjct: 241 TDDLKK--RKNIFTGKRLNIFDMMAVTKEAPETDTSPSLWDVEFAKQLATVNEQPLQNGF 298
Query: 960 EEMIQWTKKGKLWEFP 1007
EE+IQWTK+GKLWEFP
Sbjct: 299 EELIQWTKEGKLWEFP 314
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: 30,363,158
Number of extensions: 634053
Number of successful extensions: 2023
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2018
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 244
Effective length of database: 14,901,872
Effective search space: 3636056768
Effective search space used: 3636056768
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 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-003518
(1043 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_065585.1| 28S ribosomal protein S31, mitochondrial precur... 278 7e-75
>ref|NP_065585.1| 28S ribosomal protein S31, mitochondrial precursor [Mus musculus].
Length = 384
Score = 278 bits (710), Expect = 7e-75
Identities = 148/269 (55%), Positives = 185/269 (68%), Gaps = 1/269 (0%)
Frame = +3
Query: 204 GTVRTENNIQRYFGTNNLVYSKKDEQSGPTCEIS-KETESKGSVKENSKKDLLNIIKGMK 380
G VRTENNIQR+F T+ + SKK +QS P EIS K ES+G KE KKDLL+IIK MK
Sbjct: 37 GAVRTENNIQRHFCTSRSICSKKVDQSVPANEISQKAAESQGRGKETLKKDLLDIIKDMK 96
Query: 381 VELSTVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXP 560
V+LST NV+T KP ++ +LE + R++KAPED P+KR P
Sbjct: 97 VDLSTANVKTPKPRGRKPSASLEATVDRLQKAPEDPPKKRNEFLSPELVAAASAVADSLP 156
Query: 561 FDRRMTKSELLRQLQKHEEDSRAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQ 740
FD++ TKSELLRQLQ+HEE+ RAQKD EK +ISF++IIS+MK+A+S + R STRP HQIQ
Sbjct: 157 FDKQTTKSELLRQLQQHEEELRAQKDREKRRISFTHIISNMKIAKSPSGRASTRPQHQIQ 216
Query: 741 FDEGTDDFADQEKTLNLKKSFRKNIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQ 920
FDE D QEK + +K RK +FKG+RL+IF SLW+IEFAKQ
Sbjct: 217 FDEDMDSSLKQEKPTDFRK--RKYLFKGKRLSIFADKAFADEPPEPEASPSLWEIEFAKQ 274
Query: 921 LAAVTERPFQNGFEEMIQWTKKGKLWEFP 1007
LA+V ++PF+NGFEEMIQWTK+GKLWEFP
Sbjct: 275 LASVADQPFENGFEEMIQWTKEGKLWEFP 303
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: 26,052,149
Number of extensions: 549150
Number of successful extensions: 1745
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1741
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 245
Effective length of database: 12,553,887
Effective search space: 3075702315
Effective search space used: 3075702315
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-003518
(1043 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_001926138.2| PREDICTED: 28S ribosomal protein S31, mitoch... 471 e-133
Alignment gi|XP_001926166.2| PREDICTED: 28S ribosomal protein S31, mitoch... 454 e-128
Alignment gi|XP_003130991.2| PREDICTED: 28S ribosomal protein S31, mitoch... 250 8e-67
>ref|XP_001926138.2| PREDICTED: 28S ribosomal protein S31, mitochondrial isoform 1 [Sus
scrofa].
Length = 387
Score = 471 bits (1212), Expect = e-133
Identities = 246/306 (80%), Positives = 248/306 (81%)
Frame = +3
Query: 90 MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVRTENNIQRYFGTNNLVYSK 269
MLPRVSAVI CSGGPE RGTVRTENNIQRYFGTNNLVYSK
Sbjct: 1 MLPRVSAVIPLRPLSRLPLCSGGPEASAAAILLLDSLRGTVRTENNIQRYFGTNNLVYSK 60
Query: 270 KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 449
KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE
Sbjct: 61 KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 120
Query: 450 TAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQLQKHEEDSRA 629
TAIGRIKKAPED PQKR PFDRRMTKSELLRQLQKHEEDS+A
Sbjct: 121 TAIGRIKKAPEDAPQKRSESLSSELVAAVSAVADSLPFDRRMTKSELLRQLQKHEEDSKA 180
Query: 630 QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 809
QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK
Sbjct: 181 QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 240
Query: 810 NIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKKG 989
NIFKGRRLNIF SLWDIEFAKQLAAVTERPFQNGFEEMIQWTK+G
Sbjct: 241 NIFKGRRLNIFEPQAVTEEAPETEAVPSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKEG 300
Query: 990 KLWEFP 1007
KLWEFP
Sbjct: 301 KLWEFP 306
>ref|XP_001926166.2| PREDICTED: 28S ribosomal protein S31, mitochondrial isoform 2 [Sus
scrofa].
Length = 394
Score = 454 bits (1169), Expect = e-128
Identities = 244/315 (77%), Positives = 246/315 (78%), Gaps = 9/315 (2%)
Frame = +3
Query: 90 MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVR---------TENNIQRYF 242
MLPRVSAVI CSGGPE RGTVR TENNIQRYF
Sbjct: 1 MLPRVSAVIPLRPLSRLPLCSGGPEASAAAILLLDSLRGTVRYRISALLAPTENNIQRYF 60
Query: 243 GTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPS 422
GTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPS
Sbjct: 61 GTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPS 120
Query: 423 NKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQL 602
NKRQLKNLETAIGRIKKAPED PQKR PFDRRMTKSELLRQL
Sbjct: 121 NKRQLKNLETAIGRIKKAPEDAPQKRSESLSSELVAAVSAVADSLPFDRRMTKSELLRQL 180
Query: 603 QKHEEDSRAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKT 782
QKHEEDS+AQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKT
Sbjct: 181 QKHEEDSKAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKT 240
Query: 783 LNLKKSFRKNIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFE 962
LNLKK RKNIFKGRRLNIF SLWDIEFAKQLAAVTERPFQNGFE
Sbjct: 241 LNLKK--RKNIFKGRRLNIFEPQAVTEEAPETEAVPSLWDIEFAKQLAAVTERPFQNGFE 298
Query: 963 EMIQWTKKGKLWEFP 1007
EMIQWTK+GKLWEFP
Sbjct: 299 EMIQWTKEGKLWEFP 313
>ref|XP_003130991.2| PREDICTED: 28S ribosomal protein S31, mitochondrial-like isoform 2
[Sus scrofa].
Length = 260
Score = 250 bits (639), Expect = 8e-67
Identities = 129/153 (84%), Positives = 131/153 (85%)
Frame = +3
Query: 213 RTENNIQRYFGTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELS 392
RTENNIQRYFGTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELS
Sbjct: 15 RTENNIQRYFGTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELS 74
Query: 393 TVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRR 572
TVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKR PFDRR
Sbjct: 75 TVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKRSESLSSELVAAVSAVADSLPFDRR 134
Query: 573 MTKSELLRQLQKHEEDSRAQKDGEKPKISFSNI 671
MTKSELLRQLQKHEEDSRAQKDGEKPKI + +
Sbjct: 135 MTKSELLRQLQKHEEDSRAQKDGEKPKIRSAGV 167
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 18,922,946
Number of extensions: 396252
Number of successful extensions: 1310
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 1299
Number of HSP's successfully gapped: 3
Length of query: 347
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 247
Effective length of database: 8,854,232
Effective search space: 2186995304
Effective search space used: 2186995304
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-003518
(1043 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_Chr11 575 e-161
Sscrofa_Chr09 115 5e-23
Sscrofa_Chr04 101 8e-19
>Sscrofa_Chr11
|| Length = 87690581
Score = 575 bits (290), Expect = e-161
Identities = 290/290 (100%)
Strand = Plus / Minus
Query: 211 tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 270
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757405 tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 15757346
Query: 271 aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 330
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757345 aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 15757286
Query: 331 taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 390
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757285 taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 15757226
Query: 391 gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 450
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757225 gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 15757166
Query: 451 ctgcaattggcagaattaaaaaagcgccagaagatactccgcaaaagagg 500
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757165 ctgcaattggcagaattaaaaaagcgccagaagatactccgcaaaagagg 15757116
Score = 567 bits (286), Expect = e-159
Identities = 289/290 (99%)
Strand = Plus / Minus
Query: 211 tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 270
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773471 tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 15773412
Query: 271 aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 330
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773411 aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 15773352
Query: 331 taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 390
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773351 taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 15773292
Query: 391 gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 450
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773291 gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 15773232
Query: 451 ctgcaattggcagaattaaaaaagcgccagaagatactccgcaaaagagg 500
||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 15773231 ctgcaattggcagaattaaaaaagcgccagaagatgctccgcaaaagagg 15773182
Score = 426 bits (215), Expect = e-116
Identities = 215/215 (100%)
Strand = Plus / Minus
Query: 1 gactgggaagcggaagtaggagtggagggcgtgtttggcgggggacgcaccttcgctgca 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15775714 gactgggaagcggaagtaggagtggagggcgtgtttggcgggggacgcaccttcgctgca 15775655
Query: 61 gcgttcccggttttgatggtttctctgcgatgcttccgagggtctctgctgtcatccctc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15775654 gcgttcccggttttgatggtttctctgcgatgcttccgagggtctctgctgtcatccctc 15775595
Query: 121 ttcgccccctttcccgcctccctctgtgctccggaggcccagaggcatcggcggctgcca 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15775594 ttcgccccctttcccgcctccctctgtgctccggaggcccagaggcatcggcggctgcca 15775535
Query: 181 tcctgctgctcgattctctgcgtggaacggtcagg 215
|||||||||||||||||||||||||||||||||||
Sbjct: 15775534 tcctgctgctcgattctctgcgtggaacggtcagg 15775500
Score = 319 bits (161), Expect = 2e-84
Identities = 161/161 (100%)
Strand = Plus / Minus
Query: 498 aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 557
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15755911 aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 15755852
Query: 558 ccttttgacagacggatgaccaagtcagagctgctcaggcagctgcagaagcatgaggaa 617
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15755851 ccttttgacagacggatgaccaagtcagagctgctcaggcagctgcagaagcatgaggaa 15755792
Query: 618 gactcaagggctcagaaggatggagagaagcctaaaattag 658
|||||||||||||||||||||||||||||||||||||||||
Sbjct: 15755791 gactcaagggctcagaaggatggagagaagcctaaaattag 15755751
Score = 303 bits (153), Expect = 1e-79
Identities = 159/161 (98%)
Strand = Plus / Minus
Query: 498 aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 557
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15771978 aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 15771919
Query: 558 ccttttgacagacggatgaccaagtcagagctgctcaggcagctgcagaagcatgaggaa 617
|||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 15771918 ccttttgacagacggatgaccaagtcagagctgctcaggcagctccagaagcatgaggaa 15771859
Query: 618 gactcaagggctcagaaggatggagagaagcctaaaattag 658
||||||| |||||||||||||||||||||||||||||||||
Sbjct: 15771858 gactcaaaggctcagaaggatggagagaagcctaaaattag 15771818
Score = 268 bits (135), Expect = 6e-69
Identities = 135/135 (100%)
Strand = Plus / Minus
Query: 657 agtttcagtaacatcatatcagatatgaaagttgccagatctgccacagctagagttagt 716
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15769901 agtttcagtaacatcatatcagatatgaaagttgccagatctgccacagctagagttagt 15769842
Query: 717 acaagaccagtgcatcagattcagtttgatgaaggaaccgatgattttgctgaccaagag 776
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15769841 acaagaccagtgcatcagattcagtttgatgaaggaaccgatgattttgctgaccaagag 15769782
Query: 777 aagactctcaatctt 791
|||||||||||||||
Sbjct: 15769781 aagactctcaatctt 15769767
Score = 236 bits (119), Expect = 2e-59
Identities = 128/131 (97%)
Strand = Plus / Minus
Query: 877 cagaggcagtgccttctctttgggatatagaatttgctaagcagttagcagcagtcactg 936
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15749398 cagaggcagtgccttctctttgggatatagaatttgctaagcagttagcagcagtcactg 15749339
Query: 937 aacggccctttcaaaatggttttgaagagatgattcagtggacaaagaaggggaagttgt 996
||||||||||||| |||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 15749338 aacggccctttcagaatggttttgaagagatgattcagtggacaaaagaggggaagttgt 15749279
Query: 997 gggagttccca 1007
|||||||||||
Sbjct: 15749278 gggagttccca 15749268
Score = 178 bits (90), Expect = 4e-42
Identities = 90/90 (100%)
Strand = Plus / Minus
Query: 702 acagctagagttagtacaagaccagtgcatcagattcagtttgatgaaggaaccgatgat 761
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15753936 acagctagagttagtacaagaccagtgcatcagattcagtttgatgaaggaaccgatgat 15753877
Query: 762 tttgctgaccaagagaagactctcaatctt 791
||||||||||||||||||||||||||||||
Sbjct: 15753876 tttgctgaccaagagaagactctcaatctt 15753847
Score = 161 bits (81), Expect = 9e-37
Identities = 81/81 (100%)
Strand = Plus / Minus
Query: 799 gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 858
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15752767 gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 15752708
Query: 859 ctgaagaggcacctgaaacag 879
|||||||||||||||||||||
Sbjct: 15752707 ctgaagaggcacctgaaacag 15752687
Score = 161 bits (81), Expect = 9e-37
Identities = 81/81 (100%)
Strand = Plus / Minus
Query: 799 gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 858
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15768686 gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 15768627
Query: 859 ctgaagaggcacctgaaacag 879
|||||||||||||||||||||
Sbjct: 15768626 ctgaagaggcacctgaaacag 15768606
>Sscrofa_Chr09
|| Length = 153670197
Score = 115 bits (58), Expect = 5e-23
Identities = 130/150 (86%), Gaps = 3/150 (2%)
Strand = Plus / Plus
Query: 225 aatatccaaagatattttggcactaaca-act-tggtctatagcaagaaagatgagcagt 282
|||| ||||||||||||||| ||||||| | | || |||||||||||||||||| ||| |
Sbjct: 10172551 aatacccaaagatattttggtactaacatagtgtgatctatagcaagaaagatgtgcatt 10172610
Query: 283 ctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtgtaaaggagaatt 342
||| |||||||| ||||||| ||||||||| ||||||| ||| ||||||||||||||||
Sbjct: 10172611 ctgctccaacctatgagattaccaaggagagagagagccaagacagtgtaaaggagaata 10172670
Query: 343 cg-aaaaaagacttgctaaatattattaag 371
| |||||||||||| | |||| |||||||
Sbjct: 10172671 agaaaaaaagacttgattaatactattaag 10172700
Score = 115 bits (58), Expect = 5e-23
Identities = 130/150 (86%), Gaps = 3/150 (2%)
Strand = Plus / Minus
Query: 225 aatatccaaagatattttggcactaaca-act-tggtctatagcaagaaagatgagcagt 282
|||| ||||||||||||||| ||||||| | | || |||||||||||||||||| ||| |
Sbjct: 10254009 aatacccaaagatattttggtactaacatagtgtgatctatagcaagaaagatgtgcatt 10253950
Query: 283 ctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtgtaaaggagaatt 342
||| |||||||| ||||||| ||||||||| ||||||| ||| ||||||||||||||||
Sbjct: 10253949 ctgctccaacctatgagattaccaaggagagagagagccaagacagtgtaaaggagaata 10253890
Query: 343 cg-aaaaaagacttgctaaatattattaag 371
| |||||||||||| | |||| |||||||
Sbjct: 10253889 agaaaaaaagacttgattaatactattaag 10253860
Score = 101 bits (51), Expect = 8e-19
Identities = 169/207 (81%), Gaps = 1/207 (0%)
Strand = Plus / Plus
Query: 395 agtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggagactgc 454
||||||||||||||| | |||||| |||||| | |||||||||| ||||||| ||
Sbjct: 10172984 agtaaatgtacaaacaataaagccgcccaacagagaacaacttaaatgtttggaggctat 10173043
Query: 455 aattggcagaattaaaaaagcgccagaagatactccgcaaaagaggagtgagtctctgag 514
|| ||||||| || ||||||| ||||||||| | | ||||||| ||||||||||||||
Sbjct: 10173044 aactggcagacttcaaaaagccccagaagatgc-ctaaaaaagagaagtgagtctctgag 10173102
Query: 515 ctctgagttggtggcggctgtgtctgctgttgcagactctctcccttttgacagacggat 574
|| ||||||| | |||| ||||| |||||||||||||||||||||||| || ||
Sbjct: 10173103 tcctcagttggtagtagctgcacctgctattgcagactctctcccttttgacacacagac 10173162
Query: 575 gaccaagtcagagctgctcaggcagct 601
|||||||| ||||||||||||||||
Sbjct: 10173163 aaccaagtccaagctgctcaggcagct 10173189
Score = 101 bits (51), Expect = 8e-19
Identities = 169/207 (81%), Gaps = 1/207 (0%)
Strand = Plus / Minus
Query: 395 agtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggagactgc 454
||||||||||||||| | |||||| |||||| | |||||||||| ||||||| ||
Sbjct: 10253576 agtaaatgtacaaacaataaagccgcccaacagagaacaacttaaatgtttggaggctat 10253517
Query: 455 aattggcagaattaaaaaagcgccagaagatactccgcaaaagaggagtgagtctctgag 514
|| ||||||| || ||||||| ||||||||| | | ||||||| ||||||||||||||
Sbjct: 10253516 aactggcagacttcaaaaagccccagaagatgc-ctaaaaaagagaagtgagtctctgag 10253458
Query: 515 ctctgagttggtggcggctgtgtctgctgttgcagactctctcccttttgacagacggat 574
|| ||||||| | |||| ||||| |||||||||||||||||||||||| || ||
Sbjct: 10253457 tcctcagttggtagtagctgcacctgctattgcagactctctcccttttgacacacagac 10253398
Query: 575 gaccaagtcagagctgctcaggcagct 601
|||||||| ||||||||||||||||
Sbjct: 10253397 aaccaagtccaagctgctcaggcagct 10253371
>Sscrofa_Chr04
|| Length = 143465943
Score = 101 bits (51), Expect = 8e-19
Identities = 124/146 (84%), Gaps = 3/146 (2%)
Strand = Plus / Minus
Query: 594 aggcagctgcagaagcatgaggaagactcaagggctcagaaggatggagagaagcctaaa 653
|||||||| ||| ||||||||||||| |||| || || | || ||||| | ||||||
Sbjct: 27345004 aggcagctccaggagcatgaggaagatgcaagagcatagcaagacggagaaatacctaaa 27344945
Query: 654 attagtttcagtaacatcatatcagatatgaaagttgccagatctgccacagctagagtt 713
||||||||||||||||| |||||| | || |||||||||| |||||| ||||||| ||
Sbjct: 27344944 attagtttcagtaacataatatca-agataaaagttgccatatctgctccagctag--tt 27344888
Query: 714 agtacaagaccagtgcatcagattca 739
||||||||||||||||||||||||||
Sbjct: 27344887 agtacaagaccagtgcatcagattca 27344862
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: 36,363,112
Number of extensions: 350
Number of successful extensions: 350
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 345
Number of HSP's successfully gapped: 19
Length of query: 1043
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1022
Effective length of database: 2,808,413,156
Effective search space: 2870198245432
Effective search space used: 2870198245432
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)