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-012693
(1483 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_535133.2| PREDICTED: similar to syndecan 2 precursor [Can... 223 3e-58
Alignment gi|XP_543017.2| PREDICTED: similar to Syndecan-4 precursor (Amp... 62 2e-09
>ref|XP_535133.2| PREDICTED: similar to syndecan 2 precursor [Canis familiaris].
Length = 266
Score = 223 bits (569), Expect = 3e-58
Identities = 122/185 (65%), Positives = 129/185 (69%)
Frame = +3
Query: 549 AESRAELTSDKDMYLDNSSIEEASGVYPIXXXXXXXXXXXXXXXXVESPELTTSRPLPKI 728
A RAELTSDKDMYLDNSS+EEASGVYPI ESPE T SRPLP
Sbjct: 83 APGRAELTSDKDMYLDNSSVEEASGVYPIDDDDYASASGSGADEDGESPEPTASRPLPNA 142
Query: 729 PITSAAPRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSERKTDPAEEDTNVYTEKHS 908
TSA P E TTL K + K PAQT+SPEEI ++KV LSDSERK DP++ED NVYTEKHS
Sbjct: 143 GPTSAVPAAEATTL-KTRGKEPAQTESPEEIGEDKVRLSDSERKVDPSDEDANVYTEKHS 201
Query: 909 DNLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSYDLGERKPSSAAYQKAPT 1088
DNLFKRTEVLAAV YRMRKKDEGSYDLGERKPSSAAYQKAPT
Sbjct: 202 DNLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGSYDLGERKPSSAAYQKAPT 261
Query: 1089 KEFYA 1103
KEFYA
Sbjct: 262 KEFYA 266
>ref|XP_543017.2| PREDICTED: similar to Syndecan-4 precursor (Amphiglycan) (SYND4)
(Ryudocan core protein) [Canis familiaris].
Length = 202
Score = 61.6 bits (148), Expect = 2e-09
Identities = 42/118 (35%), Positives = 58/118 (49%), Gaps = 9/118 (7%)
Frame = +3
Query: 777 MQNKIPAQTKSPEEIDKEKVHLSDSE---RKTDPAEEDTNVYTE------KHSDNLFKRT 929
+ N IP + + E L ++E ++ P E D +V + N+F+RT
Sbjct: 89 LDNHIPEKAGPGSWVPTEPKELEENEVIPKRISPFEGDEDVSNKVSMSSTAQGGNIFERT 148
Query: 930 EVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSYDLGERKPSSAAYQKAPTKEFYA 1103
EVLAA+ YRM+KKDEG+YDLG +KP Y+KAPT EFYA
Sbjct: 149 EVLAALIVGGGVGILFAIFLVLLLVYRMKKKDEGTYDLG-KKP---IYKKAPTNEFYA 202
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: 49,458,384
Number of extensions: 1166404
Number of successful extensions: 6569
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 6492
Number of HSP's successfully gapped: 2
Length of query: 494
Length of database: 18,874,504
Length adjustment: 107
Effective length of query: 387
Effective length of database: 15,307,552
Effective search space: 5924022624
Effective search space used: 5924022624
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: 36 (18.5 bits)
Animal-Genome cDNA 20110601C-012693
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-012693
(1483 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_001029960.2| syndecan-2 precursor [Bos taurus]. 292 5e-79
Alignment gi|XP_002692376.1| PREDICTED: syndecan 4-like [Bos taurus]. 64 5e-10
Alignment gi|XP_584869.2| PREDICTED: syndecan 4-like [Bos taurus]. 64 5e-10
>ref|NP_001029960.2| syndecan-2 precursor [Bos taurus].
Length = 202
Score = 292 bits (748), Expect = 5e-79
Identities = 154/202 (76%), Positives = 158/202 (78%)
Frame = +3
Query: 498 MRRVWILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPIXXXXXXXXXXXXXX 677
MRR WILLT LVACVSAESRAELTSDKDMYLDN+SIEEASGVYPI
Sbjct: 1 MRRAWILLTWVLVACVSAESRAELTSDKDMYLDNNSIEEASGVYPIDDDDYASASGSGAG 60
Query: 678 XXVESPELTTSRPLPKIPITSAAPRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSER 857
ESPELTTSRP+PKIP TS APRVETTTL K+Q+KIPAQTKSPEEIDKEKVHL DSER
Sbjct: 61 EDGESPELTTSRPIPKIPFTSTAPRVETTTLSKIQDKIPAQTKSPEEIDKEKVHLPDSER 120
Query: 858 KTDPAEEDTNVYTEKHSDNLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSY 1037
KTDP EEDTNVYTEKHSDNLFKRTEVLAAV YRMRKKDEGSY
Sbjct: 121 KTDPDEEDTNVYTEKHSDNLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGSY 180
Query: 1038 DLGERKPSSAAYQKAPTKEFYA 1103
DLGERKPSSAAYQKAPTKEFYA
Sbjct: 181 DLGERKPSSAAYQKAPTKEFYA 202
>ref|XP_002692376.1| PREDICTED: syndecan 4-like [Bos taurus].
Length = 199
Score = 63.5 bits (153), Expect = 5e-10
Identities = 44/120 (36%), Positives = 63/120 (52%), Gaps = 11/120 (9%)
Frame = +3
Query: 777 MQNKIPAQTKS-----PEEIDKEKVHLSDSERKTDPAEEDTNVYTE------KHSDNLFK 923
+ N IP +T S P+E+++ +V +++ P + D +V + N+F+
Sbjct: 88 IDNHIPEKTGSGVPTEPKELEENEV----IPKRSSPFDGDEDVSNKVSMSSTAQGSNIFE 143
Query: 924 RTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSYDLGERKPSSAAYQKAPTKEFYA 1103
RTEVLAA+ YRM+KKDEGSYDLG +KP Y+KAPT EFYA
Sbjct: 144 RTEVLAALVVGGVVGILFAVFLVLLLVYRMKKKDEGSYDLG-KKP---IYKKAPTNEFYA 199
>ref|XP_584869.2| PREDICTED: syndecan 4-like [Bos taurus].
Length = 199
Score = 63.5 bits (153), Expect = 5e-10
Identities = 44/120 (36%), Positives = 63/120 (52%), Gaps = 11/120 (9%)
Frame = +3
Query: 777 MQNKIPAQTKS-----PEEIDKEKVHLSDSERKTDPAEEDTNVYTE------KHSDNLFK 923
+ N IP +T S P+E+++ +V +++ P + D +V + N+F+
Sbjct: 88 IDNHIPEKTGSGVPTEPKELEENEV----IPKRSSPFDGDEDVSNKVSMSSTAQGSNIFE 143
Query: 924 RTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSYDLGERKPSSAAYQKAPTKEFYA 1103
RTEVLAA+ YRM+KKDEGSYDLG +KP Y+KAPT EFYA
Sbjct: 144 RTEVLAALVVGGVVGILFAVFLVLLLVYRMKKKDEGSYDLG-KKP---IYKKAPTNEFYA 199
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: 47,403,567
Number of extensions: 1140555
Number of successful extensions: 6109
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 6082
Number of HSP's successfully gapped: 3
Length of query: 494
Length of database: 17,681,374
Length adjustment: 106
Effective length of query: 388
Effective length of database: 14,174,046
Effective search space: 5499529848
Effective search space used: 5499529848
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: 36 (18.5 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-012693
(1483 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_001926974.2| PREDICTED: syndecan-2 [Sus scrofa]. 317 8e-87
Alignment gi|NP_999449.1| syndecan-4 precursor [Sus scrofa]. 64 2e-10
>ref|XP_001926974.2| PREDICTED: syndecan-2 [Sus scrofa].
Length = 202
Score = 317 bits (813), Expect = 8e-87
Identities = 167/202 (82%), Positives = 167/202 (82%)
Frame = +3
Query: 498 MRRVWILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPIXXXXXXXXXXXXXX 677
MRRVWILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPI
Sbjct: 1 MRRVWILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPIDDDDYASASGSGAD 60
Query: 678 XXVESPELTTSRPLPKIPITSAAPRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSER 857
VESPELTTSRPLPKIPITSAAPRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSER
Sbjct: 61 EDVESPELTTSRPLPKIPITSAAPRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSER 120
Query: 858 KTDPAEEDTNVYTEKHSDNLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSY 1037
KTDPAEEDTNVYTEKHSDNLFKRTEVLAAV YRMRKKDEGSY
Sbjct: 121 KTDPAEEDTNVYTEKHSDNLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGSY 180
Query: 1038 DLGERKPSSAAYQKAPTKEFYA 1103
DLGERKPSSAAYQKAPTKEFYA
Sbjct: 181 DLGERKPSSAAYQKAPTKEFYA 202
>ref|NP_999449.1| syndecan-4 precursor [Sus scrofa].
Length = 202
Score = 63.9 bits (154), Expect = 2e-10
Identities = 44/124 (35%), Positives = 61/124 (49%), Gaps = 9/124 (7%)
Frame = +3
Query: 759 TTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSE---RKTDPAEEDTNVYTE------KHSD 911
T L + N IP +T + E L ++E ++ P + D +V +
Sbjct: 83 THPLVPLDNHIPERTGPGGRVPTEPKELEENEVIPKRMSPFDGDEDVSNKVSMSSTAQGS 142
Query: 912 NLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSYDLGERKPSSAAYQKAPTK 1091
N+F+RTEVL+A+ YRM+KKDEGSYDLG +KP Y+KAPT
Sbjct: 143 NIFERTEVLSALIVGGIVGILFAVFLVLLLVYRMKKKDEGSYDLG-KKP---IYKKAPTN 198
Query: 1092 EFYA 1103
EFYA
Sbjct: 199 EFYA 202
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: 30,470,069
Number of extensions: 728329
Number of successful extensions: 3824
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 3812
Number of HSP's successfully gapped: 2
Length of query: 494
Length of database: 11,343,932
Length adjustment: 103
Effective length of query: 391
Effective length of database: 8,779,541
Effective search space: 3432800531
Effective search space used: 3432800531
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-012693
(1483 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_032330.1| syndecan-2 precursor [Mus musculus]. 247 1e-65
Alignment gi|NP_035651.1| syndecan-4 precursor [Mus musculus]. 61 3e-09
>ref|NP_032330.1| syndecan-2 precursor [Mus musculus].
Length = 202
Score = 247 bits (631), Expect = 1e-65
Identities = 134/203 (66%), Positives = 151/203 (74%), Gaps = 1/203 (0%)
Frame = +3
Query: 498 MRRVWILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPIXXXXXXXXXXXXXX 677
M+R WILLTLGL+ACVSAE+R ELTSDKDMYLDNSSIEEASGVYPI
Sbjct: 1 MQRAWILLTLGLMACVSAETRTELTSDKDMYLDNSSIEEASGVYPIDDDDYSSASGSGAD 60
Query: 678 XXVESPELTTSRPLPKIPITSAA-PRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSE 854
+ESP LTTS+ +P+IP+TSAA P+VET TL K Q+ PAQT+SPEE DKE+V +S++E
Sbjct: 61 EDIESPVLTTSQLIPRIPLTSAASPKVETMTL-KTQSITPAQTESPEETDKEEVDISEAE 119
Query: 855 RKTDPAEEDTNVYTEKHSDNLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGS 1034
K PA + T+VYTEKHSDNLFKRTEVLAAV YRMRKKDEGS
Sbjct: 120 EKLGPAIKSTDVYTEKHSDNLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGS 179
Query: 1035 YDLGERKPSSAAYQKAPTKEFYA 1103
YDLGERKPSSAAYQKAPTKEFYA
Sbjct: 180 YDLGERKPSSAAYQKAPTKEFYA 202
>ref|NP_035651.1| syndecan-4 precursor [Mus musculus].
Length = 198
Score = 60.8 bits (146), Expect = 3e-09
Identities = 39/106 (36%), Positives = 53/106 (50%)
Frame = +3
Query: 786 KIPAQTKSPEEIDKEKVHLSDSERKTDPAEEDTNVYTEKHSDNLFKRTEVLAAVXXXXXX 965
++P++ K EE E + D ++ + N+F+RTEVLAA+
Sbjct: 99 RVPSEPKELEE--NEVIPKRAPSDVGDDMSNKVSMSSTAQGSNIFERTEVLAALIVGGVV 156
Query: 966 XXXXXXXXXXXXXYRMRKKDEGSYDLGERKPSSAAYQKAPTKEFYA 1103
YRM+KKDEGSYDLG +KP Y+KAPT EFYA
Sbjct: 157 GILFAVFLILLLVYRMKKKDEGSYDLG-KKP---IYKKAPTNEFYA 198
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: 41,392,049
Number of extensions: 982918
Number of successful extensions: 4919
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4881
Number of HSP's successfully gapped: 2
Length of query: 494
Length of database: 15,617,559
Length adjustment: 105
Effective length of query: 389
Effective length of database: 12,463,779
Effective search space: 4848410031
Effective search space used: 4848410031
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: 36 (18.5 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-012693
(1483 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_002989.2| syndecan-2 precursor [Homo sapiens]. 294 2e-79
Alignment gi|NP_002990.2| syndecan-4 precursor [Homo sapiens]. 69 1e-11
Alignment gi|NP_055469.3| syndecan-3 [Homo sapiens]. 49 9e-06
>ref|NP_002989.2| syndecan-2 precursor [Homo sapiens].
Length = 201
Score = 294 bits (752), Expect = 2e-79
Identities = 157/202 (77%), Positives = 162/202 (80%)
Frame = +3
Query: 498 MRRVWILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPIXXXXXXXXXXXXXX 677
MRR WILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPI
Sbjct: 1 MRRAWILLTLGLVACVSAESRAELTSDKDMYLDNSSIEEASGVYPIDDDDYASASGSGAD 60
Query: 678 XXVESPELTTSRPLPKIPITSAAPRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSER 857
VESPELTTSRPLPKI +TSAAP+VETTTL+ +QNKIPAQTKSPEE DKEKVHLSDSER
Sbjct: 61 EDVESPELTTSRPLPKILLTSAAPKVETTTLN-IQNKIPAQTKSPEETDKEKVHLSDSER 119
Query: 858 KTDPAEEDTNVYTEKHSDNLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDEGSY 1037
K DPAEEDTNVYTEKHSD+LFKRTEVLAAV YRMRKKDEGSY
Sbjct: 120 KMDPAEEDTNVYTEKHSDSLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGSY 179
Query: 1038 DLGERKPSSAAYQKAPTKEFYA 1103
DLGERKPSSAAYQKAPTKEFYA
Sbjct: 180 DLGERKPSSAAYQKAPTKEFYA 201
>ref|NP_002990.2| syndecan-4 precursor [Homo sapiens].
Length = 198
Score = 68.9 bits (167), Expect = 1e-11
Identities = 51/145 (35%), Positives = 70/145 (48%), Gaps = 9/145 (6%)
Frame = +3
Query: 696 ELTTSRPLPKIPITSAAPRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSE---RKTD 866
EL+ S L + + P V L + N IP + S ++ E L ++E ++
Sbjct: 59 ELSGSGDLDDLEDSMIGPEV-VHPLVPLDNHIPERAGSGSQVPTEPKKLEENEVIPKRIS 117
Query: 867 PAEEDTNVYTEK------HSDNLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDE 1028
P EE +V + N+F+RTEVLAA+ YRM+KKDE
Sbjct: 118 PVEESEDVSNKVSMSSTVQGSNIFERTEVLAALIVGGIVGILFAVFLILLLMYRMKKKDE 177
Query: 1029 GSYDLGERKPSSAAYQKAPTKEFYA 1103
GSYDLG +KP Y+KAPT EFYA
Sbjct: 178 GSYDLG-KKP---IYKKAPTNEFYA 198
>ref|NP_055469.3| syndecan-3 [Homo sapiens].
Length = 442
Score = 49.3 bits (116), Expect = 9e-06
Identities = 44/146 (30%), Positives = 61/146 (41%), Gaps = 11/146 (7%)
Frame = +3
Query: 699 LTTSRPLPKIPITSAA------PRVETTTLDKMQNKIPAQTKSPEEIDKEKVHLSDSERK 860
LTT R P++P++ P ETT D N++ A + + L R
Sbjct: 298 LTTIRDEPEVPVSGGPSGDFELPEEETTQPDTA-NEVVAVGGAAAKASSPPGTLPKGARP 356
Query: 861 ----TDPAEEDTNVYTEKHSDNLFKRTEVLAAVXXXXXXXXXXXXXXXXXXXYRMRKKDE 1028
D A + + + ++ +R EVL AV YRM+KKDE
Sbjct: 357 GPGLLDNAIDSGSSAAQLPQKSILERKEVLVAVIVGGVVGALFAAFLVTLLIYRMKKKDE 416
Query: 1029 GSYDLGERKPSSAAYQKA-PTKEFYA 1103
GSY L E K +S YQK +EFYA
Sbjct: 417 GSYTLEEPKQASVTYQKPDKQEEFYA 442
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: 48,591,415
Number of extensions: 1152976
Number of successful extensions: 5846
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 5827
Number of HSP's successfully gapped: 3
Length of query: 494
Length of database: 18,297,164
Length adjustment: 107
Effective length of query: 387
Effective length of database: 14,770,016
Effective search space: 5715996192
Effective search space used: 5715996192
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: 36 (18.5 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-012693
(1483 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_Chr04 630 e-178
Sscrofa_Chr10 68 1e-08
>Sscrofa_Chr04
|| Length = 143465943
Score = 630 bits (318), Expect = e-178
Identities = 321/322 (99%)
Strand = Plus / Minus
Query: 2 ctagccctgccggacgcgcttctctcgagatactcccagagctccagccgcgcggatctc 61
|||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 43248109 ctagccctgccggacgcgcttctctccagatactcccagagctccagccgcgcggatctc 43248050
Query: 62 gcgcccccaccgctctgcccccaaacttcagctgcagctacattccaagccatctaattt 121
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43248049 gcgcccccaccgctctgcccccaaacttcagctgcagctacattccaagccatctaattt 43247990
Query: 122 attcctcaaaaatcagaaaccgagccgcgacacggggaaggagtccgcggaggagtaaaa 181
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43247989 attcctcaaaaatcagaaaccgagccgcgacacggggaaggagtccgcggaggagtaaaa 43247930
Query: 182 ctacagcagagcaagaaaggctccagagagctgcctccccggagcaacaactcggcgtcg 241
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43247929 ctacagcagagcaagaaaggctccagagagctgcctccccggagcaacaactcggcgtcg 43247870
Query: 242 ggagtgtaggaaccaacaagtgagaaggcgccgcgttcccccagcgcagccgcgggcagc 301
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43247869 ggagtgtaggaaccaacaagtgagaaggcgccgcgttcccccagcgcagccgcgggcagc 43247810
Query: 302 gggagcaggcgcaggaagaaga 323
||||||||||||||||||||||
Sbjct: 43247809 gggagcaggcgcaggaagaaga 43247788
Score = 498 bits (251), Expect = e-138
Identities = 262/266 (98%)
Strand = Plus / Minus
Query: 1218 cattcaagtgccagcatggcacctgaatgataaaaccccattgtatttaaaacttttcat 1277
|||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 43123876 cattcaagtgccagcatggcacttgaatgataaaaccccattgtatttaaaacttttcat 43123817
Query: 1278 gtatttctgtcgaacaacataaaatcgaaacttcacatctgcagtgttctgtgaatagca 1337
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43123816 gtatttctgtcgaacaacataaaatcgaaacttcacatctgcagtgttctgtgaatagca 43123757
Query: 1338 gtggcaaaatattatgttatacagaccctttatgttcataggattggntttaacttttac 1397
|||||||||||||||||||||||||||||| |||||||||||||||| || |||||||||
Sbjct: 43123756 gtggcaaaatattatgttatacagacccttaatgttcataggattggtttaaacttttac 43123697
Query: 1398 gtgcaaatatgaaaagattgtctttatccactggttcagagatgaaagctgtttcatttg 1457
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43123696 gtgcaaatatgaaaagattgtctttatccactggttcagagatgaaagctgtttcatttg 43123637
Query: 1458 tgtcagcatgtctcagattgacctta 1483
||||||||||||||||||||||||||
Sbjct: 43123636 tgtcagcatgtctcagattgacctta 43123611
Score = 492 bits (248), Expect = e-136
Identities = 248/248 (100%)
Strand = Plus / Minus
Query: 940 cagctgtcattgctggcggagttatcggctttctctttgccattttccttattctgctgt 999
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43124154 cagctgtcattgctggcggagttatcggctttctctttgccattttccttattctgctgt 43124095
Query: 1000 tggtgtatcgcatgagaaagaaggatgaaggaagttatgaccttggagaacgcaaaccat 1059
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43124094 tggtgtatcgcatgagaaagaaggatgaaggaagttatgaccttggagaacgcaaaccat 43124035
Query: 1060 ccagcgctgcttaccagaaggcaccgactaaggagttttatgcgtgaaaactccctctta 1119
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43124034 ccagcgctgcttaccagaaggcaccgactaaggagttttatgcgtgaaaactccctctta 43123975
Query: 1120 gtgtctctatttatgagatcactgaacttttaaaaataaagcttttgcatagaataatga 1179
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43123974 gtgtctctatttatgagatcactgaacttttaaaaataaagcttttgcatagaataatga 43123915
Query: 1180 agatctct 1187
||||||||
Sbjct: 43123914 agatctct 43123907
Score = 357 bits (180), Expect = 1e-95
Identities = 180/180 (100%)
Strand = Plus / Minus
Query: 378 cggtcgcggaggctgctccgctccggattcttcggcgcgggctgcgccgggcgctgagca 437
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43247733 cggtcgcggaggctgctccgctccggattcttcggcgcgggctgcgccgggcgctgagca 43247674
Query: 438 agaggttccgcttctctctggttgcaagcggcggctgggagcagccgatccccggggaat 497
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43247673 agaggttccgcttctctctggttgcaagcggcggctgggagcagccgatccccggggaat 43247614
Query: 498 atgcggcgcgtttggatcctgctcaccttgggcttggtggcctgcgtgtcggcggagtcg 557
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43247613 atgcggcgcgtttggatcctgctcaccttgggcttggtggcctgcgtgtcggcggagtcg 43247554
Score = 278 bits (140), Expect = 8e-72
Identities = 140/140 (100%)
Strand = Plus / Minus
Query: 667 caggggccgatgaggacgtagagagtccagagctgaccacatctcgaccccttccaaaga 726
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43131514 caggggccgatgaggacgtagagagtccagagctgaccacatctcgaccccttccaaaga 43131455
Query: 727 taccgatcaccagtgccgctccgagagtggaaaccacgacgctggacaagatgcagaaca 786
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43131454 taccgatcaccagtgccgctccgagagtggaaaccacgacgctggacaagatgcagaaca 43131395
Query: 787 agatccctgctcagacaaag 806
||||||||||||||||||||
Sbjct: 43131394 agatccctgctcagacaaag 43131375
Score = 274 bits (138), Expect = 1e-70
Identities = 138/138 (100%)
Strand = Plus / Minus
Query: 805 agtcacctgaagaaattgataaggagaaagttcacctctctgactcagaaaggaaaacgg 864
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43125720 agtcacctgaagaaattgataaggagaaagttcacctctctgactcagaaaggaaaacgg 43125661
Query: 865 acccagctgaagaggatacaaatgtgtatacggagaagcactcagacaatctgtttaaaa 924
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43125660 acccagctgaagaggatacaaatgtgtatacggagaagcactcagacaatctgtttaaaa 43125601
Query: 925 gaacagaagtcctggcag 942
||||||||||||||||||
Sbjct: 43125600 gaacagaagtcctggcag 43125583
Score = 226 bits (114), Expect = 3e-56
Identities = 114/114 (100%)
Strand = Plus / Minus
Query: 557 gcgggcagagctgacgtctgataaagacatgtaccttgacaacagctccattgaagaagc 616
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43138560 gcgggcagagctgacgtctgataaagacatgtaccttgacaacagctccattgaagaagc 43138501
Query: 617 ttcaggagtgtatcctattgatgatgacgactatgcttctgcttcaggctcagg 670
||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43138500 ttcaggagtgtatcctattgatgatgacgactatgcttctgcttcaggctcagg 43138447
>Sscrofa_Chr10
|| Length = 79102373
Score = 67.9 bits (34), Expect = 1e-08
Identities = 57/64 (89%), Gaps = 3/64 (4%)
Strand = Plus / Plus
Query: 1111 tccctcttagtgtctctatttatgagatcactgaacttttaaaaataaagcttttgcata 1170
|||| |||||||||||||||||| |||||||||||||| |||||||||||||| || |
Sbjct: 38625734 tcccacttagtgtctctatttat---atcactgaactttttaaaataaagcttttacaaa 38625790
Query: 1171 gaat 1174
||||
Sbjct: 38625791 gaat 38625794
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: 42,253,743
Number of extensions: 326
Number of successful extensions: 326
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 325
Number of HSP's successfully gapped: 8
Length of query: 1483
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1462
Effective length of database: 2,808,413,156
Effective search space: 4105900034072
Effective search space used: 4105900034072
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)