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-012493
(1183 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|XP_002706483.1| PREDICTED: hypothetical protein [Bos taurus]. 231 1e-60
>ref|XP_002706483.1| PREDICTED: hypothetical protein [Bos taurus].
Length = 319
Score = 231 bits (588), Expect = 1e-60
Identities = 128/225 (56%), Positives = 158/225 (70%), Gaps = 7/225 (3%)
Frame = +1
Query: 289 DNWKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVI 468
+N+ K F +LIV + NL +D SPKPTVFLPSIAEI NAGTYLCLLE FFP+VI
Sbjct: 99 NNYIKNFNVGAKLIVT--ERNLEADTSPKPTVFLPSIAEINHDNAGTYLCLLEKFFPDVI 156
Query: 469 KVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQE 648
V W+ KN + L SQQGNTM+T +TYMKFSWLTV++ +MDK+H CVVKH+KN GG+DQE
Sbjct: 157 TVSWRAKNDKRALPSQQGNTMKTKDTYMKFSWLTVTENSMDKQHVCVVKHKKNIGGIDQE 216
Query: 649 IIFPSVNEVVSSAV-----MPTDSPNDCLKDESKVSDSDSRKACVRNESEVTNSTKACLK 813
IIFPS+ EVV+S V T+ PNDCL DES ++D+ S+KAC+++ S+ TNSTKACL+
Sbjct: 217 IIFPSIKEVVTSLVPTTEPPTTEPPNDCLTDES-ITDTGSKKACLKDGSD-TNSTKACLE 274
Query: 814 DESNTLQLQLENXXXXXXXXXXXXXXXXXXXXT-ISCLFRRT-VC 942
ES+TLQLQL N ISC+FRRT VC
Sbjct: 275 GESSTLQLQLMNTSTAYYTYLLLLFLSTVYFVVIISCVFRRTGVC 319
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: 38,084,850
Number of extensions: 890410
Number of successful extensions: 2310
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2306
Number of HSP's successfully gapped: 1
Length of query: 394
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 290
Effective length of database: 14,240,222
Effective search space: 4129664380
Effective search space used: 4129664380
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)
Animal-Genome cDNA 20110601C-012493
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-012493
(1183 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_851677.1| PREDICTED: similar to T-cell receptor gamma cha... 186 3e-47
Alignment gi|XP_851630.1| PREDICTED: similar to T-cell receptor gamma cha... 184 2e-46
Alignment gi|XP_851622.1| PREDICTED: similar to T-cell receptor gamma cha... 176 5e-44
Alignment gi|XP_851648.1| PREDICTED: similar to T-cell receptor gamma cha... 174 1e-43
Alignment gi|XP_851696.1| PREDICTED: similar to T-cell receptor gamma cha... 166 4e-41
Alignment gi|XP_851583.1| PREDICTED: similar to T-cell receptor gamma cha... 157 1e-38
Alignment gi|XP_859630.1| PREDICTED: similar to immunoglobulin iota chain... 50 4e-06
Alignment gi|XP_859118.1| PREDICTED: similar to immunoglobulin iota chain... 49 9e-06
Alignment gi|XP_857797.1| PREDICTED: similar to immunoglobulin iota chain... 49 9e-06
>ref|XP_851677.1| PREDICTED: similar to T-cell receptor gamma chain C region DFL12
[Canis familiaris].
Length = 415
Score = 186 bits (473), Expect = 3e-47
Identities = 87/135 (64%), Positives = 112/135 (82%), Gaps = 2/135 (1%)
Frame = +1
Query: 265 FCRSFNQCDN--WKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLC 438
+C ++ +CDN W KIFG+ +LIV P D NL SPKPT+FLPSIAE LHNAGTYLC
Sbjct: 216 YCAAW-RCDNSGWIKIFGEGTKLIVTPSDRNLNVGTSPKPTIFLPSIAETTLHNAGTYLC 274
Query: 439 LLENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKH 618
LLENFFP+VIK+ WKEKN VL+SQQG+T++T +TYMKFSWLTV+ +++KE+KC++KH
Sbjct: 275 LLENFFPDVIKIDWKEKNDKTVLKSQQGDTIKTYDTYMKFSWLTVTGVSVNKEYKCIIKH 334
Query: 619 EKNRGGVDQEIIFPS 663
E+N+GGV+QEI+FPS
Sbjct: 335 ERNKGGVEQEILFPS 349
>ref|XP_851630.1| PREDICTED: similar to T-cell receptor gamma chain C region C10.5
[Canis familiaris].
Length = 347
Score = 184 bits (466), Expect = 2e-46
Identities = 94/197 (47%), Positives = 134/197 (68%), Gaps = 2/197 (1%)
Frame = +1
Query: 265 FCRSFNQCDNWKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLL 444
+C ++ W K+FG L V D+SPKPT+FLPSIAEIK+H AGTYLC L
Sbjct: 116 YCAAWEPVSKWNKVFGPGTTLRVTDKS---PEDISPKPTIFLPSIAEIKVHKAGTYLCHL 172
Query: 445 ENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEK 624
E P+V K+ WKEKN +L+SQQGNT++T +TYMKFSW+ V++ ++DKEH+C+VK E+
Sbjct: 173 EENIPDVFKIDWKEKNVKTILQSQQGNTVKTEDTYMKFSWVIVTEESLDKEHQCIVKDER 232
Query: 625 NRGGVDQEIIFPSVNEVVSSAVMPTDSPNDCLKDESKVSDSDSRKACVRNESEVT--NST 798
N+ V+QEI FPS+N+ +SS + + ++ L+ + + SRKA + ++T NST
Sbjct: 233 NKERVNQEIDFPSINKDLSSILSLSLCMSENLRATGLTNLTRSRKAALEATQKLTAINST 292
Query: 799 KACLKDESNTLQLQLEN 849
+A L DE++TLQLQL N
Sbjct: 293 EAFLDDENHTLQLQLMN 309
>ref|XP_851622.1| PREDICTED: similar to T-cell receptor gamma chain C region DFL12
[Canis familiaris].
Length = 353
Score = 176 bits (445), Expect = 5e-44
Identities = 83/139 (59%), Positives = 102/139 (73%), Gaps = 1/139 (0%)
Frame = +1
Query: 265 FCRSFNQCDNW-KKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCL 441
+C ++ W K+ G L V N D SPKPTVFLPSI+EIK+H AGTYLCL
Sbjct: 111 YCAAWEDWSGWYNKVLGPGTILRVTDKSAN--EDTSPKPTVFLPSISEIKIHKAGTYLCL 168
Query: 442 LENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHE 621
LE+FFP +IKV WKEKN VL+SQQGNTM+T +TYMKFSWLTV+ +MDKEHKC+V HE
Sbjct: 169 LEDFFPEIIKVDWKEKNDQTVLQSQQGNTMKTKDTYMKFSWLTVTGASMDKEHKCIVNHE 228
Query: 622 KNRGGVDQEIIFPSVNEVV 678
+RGG++QEI+FPS+ V
Sbjct: 229 SDRGGINQEILFPSIKNAV 247
>ref|XP_851648.1| PREDICTED: similar to T-cell receptor gamma chain C region C10.5
[Canis familiaris].
Length = 400
Score = 174 bits (441), Expect = 1e-43
Identities = 82/135 (60%), Positives = 104/135 (77%)
Frame = +1
Query: 265 FCRSFNQCDNWKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLL 444
+C ++ D + K+FG L V D N D+ PKPTVFLPSI EIK HN GTYLCLL
Sbjct: 263 YCATWESLDRYNKVFGPGTVLRVT--DKNPDEDIPPKPTVFLPSITEIKDHNTGTYLCLL 320
Query: 445 ENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEK 624
E+FFP+VIK+ WKEK+ VL+SQQG+TM+T +TYMKFSWLTV++ +M K+HKC+VKHE+
Sbjct: 321 EDFFPDVIKIDWKEKDDKTVLQSQQGDTMKTKDTYMKFSWLTVTQESMAKDHKCMVKHER 380
Query: 625 NRGGVDQEIIFPSVN 669
N+G VDQEI FPS+N
Sbjct: 381 NKGRVDQEIDFPSIN 395
>ref|XP_851696.1| PREDICTED: similar to T-cell receptor gamma chain C region DFL12
[Canis familiaris].
Length = 313
Score = 166 bits (420), Expect = 4e-41
Identities = 95/205 (46%), Positives = 124/205 (60%), Gaps = 3/205 (1%)
Frame = +1
Query: 244 EPRRSWVFCRSFN-QCDNWK--KIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKL 414
E + +C +N + + W+ K+FG +L+V D +L +D SPKPT F PSIAE L
Sbjct: 107 EEDEAMYYCSCWNSETEVWRRIKVFGPGTKLMVT--DRSLDADNSPKPTTFFPSIAETTL 164
Query: 415 HNAGTYLCLLENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDK 594
HNAGTYLCLLENFF +VIK+ WKEK+G + +SQQGNTM+T +T+MKFSWLTV +MDK
Sbjct: 165 HNAGTYLCLLENFFRDVIKIDWKEKSGKTIPQSQQGNTMKTKDTFMKFSWLTVMGASMDK 224
Query: 595 EHKCVVKHEKNRGGVDQEIIFPSVNEVVSSAVMPTDSPNDCLKDESKVSDSDSRKACVRN 774
+KCV+KHE+N+G VDQEI+F SS +
Sbjct: 225 GYKCVIKHERNKGRVDQEILF-------SSQI---------------------------K 250
Query: 775 ESEVTNSTKACLKDESNTLQLQLEN 849
E STK LKD+++ LQLQL N
Sbjct: 251 ELTAITSTKYSLKDKNDPLQLQLMN 275
>ref|XP_851583.1| PREDICTED: similar to T-cell receptor gamma chain C region C10.5
[Canis familiaris].
Length = 465
Score = 157 bits (398), Expect = 1e-38
Identities = 84/194 (43%), Positives = 118/194 (60%), Gaps = 8/194 (4%)
Frame = +1
Query: 265 FCRSFNQCDNWKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLL 444
+C ++ N K+FG L V D+SPKPT+FLPSIAEIK H GTY+CLL
Sbjct: 195 YCAAWEAWSN--KVFGPGTILRVTDKS---PEDISPKPTIFLPSIAEIKAHQVGTYICLL 249
Query: 445 ENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEK 624
E+ P++ K+ WKEKN +L+SQQGNT++T +TYMKFSW+TV++ +MDKEH+C+VK E+
Sbjct: 250 EDIIPDIFKIDWKEKNSKTILQSQQGNTVKTKDTYMKFSWVTVTEKSMDKEHQCIVKDER 309
Query: 625 NRGGVDQEIIFPSVNEVVSSAVMPTDSP--------NDCLKDESKVSDSDSRKACVRNES 780
N+ V+QEI FPS+N+ + + + P N + + S R E
Sbjct: 310 NKERVNQEIDFPSINKDLVARMESDMDPAGHSEPKQNTEVVTLNPASSRSFRPVLSTVEF 369
Query: 781 EVTNSTKACLKDES 822
NST+A L DE+
Sbjct: 370 AAINSTEASLHDEN 383
Score = 97.1 bits (240), Expect = 3e-20
Identities = 42/65 (64%), Positives = 55/65 (84%)
Frame = +1
Query: 478 WKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEIIF 657
WKE NG +L+SQQG+TM+T + YMKFSWLTV+ +MD EHK +VKH+ N+GGVDQEI+F
Sbjct: 35 WKE-NGRTILQSQQGDTMKTKDKYMKFSWLTVTDVSMDNEHKSIVKHKSNKGGVDQEILF 93
Query: 658 PSVNE 672
PS+N+
Sbjct: 94 PSINK 98
>ref|XP_859630.1| PREDICTED: similar to immunoglobulin iota chain preproprotein
isoform 58 [Canis familiaris].
Length = 242
Score = 50.1 bits (118), Expect = 4e-06
Identities = 37/126 (29%), Positives = 58/126 (46%), Gaps = 7/126 (5%)
Frame = +1
Query: 265 FCRSFNQCDNWKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLL 444
FC S++ W +F + +EL V SP T+FLP E+ A T +CL+
Sbjct: 114 FCNSYSNSSPWF-VFSEGIELTVLGQP-----KASPSVTLFLPLSGELGADKA-TLVCLI 166
Query: 445 ENFFPNVIKVYWKEKNGNKVLE-------SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHK 603
+F+P+ + V WK +G+ V + S+Q N ++Y+ LT K
Sbjct: 167 SDFYPSGVTVAWK-ADGSPVTQGVETTKPSRQSNNKYAASSYLS---LTPDKWKSHSSFS 222
Query: 604 CVVKHE 621
C+V HE
Sbjct: 223 CLVTHE 228
>ref|XP_859118.1| PREDICTED: similar to immunoglobulin iota chain preproprotein
isoform 44 [Canis familiaris].
Length = 242
Score = 48.9 bits (115), Expect = 9e-06
Identities = 37/126 (29%), Positives = 58/126 (46%), Gaps = 7/126 (5%)
Frame = +1
Query: 265 FCRSFNQCDNWKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLL 444
FC ++N W +F + +EL V SP T+FLP E+ A T +CL+
Sbjct: 114 FCAAWNSHSPWF-VFSEGIELTVLGQP-----KASPSVTLFLPLSGELGADKA-TLVCLI 166
Query: 445 ENFFPNVIKVYWKEKNGNKVLE-------SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHK 603
+F+P+ + V WK +G+ V + S+Q N ++Y+ LT K
Sbjct: 167 SDFYPSGVTVAWK-ADGSPVTQGVETTKPSRQSNNKYAASSYLS---LTPDKWKSHSSFS 222
Query: 604 CVVKHE 621
C+V HE
Sbjct: 223 CLVTHE 228
>ref|XP_857797.1| PREDICTED: similar to immunoglobulin iota chain preproprotein
isoform 11 [Canis familiaris].
Length = 241
Score = 48.9 bits (115), Expect = 9e-06
Identities = 39/126 (30%), Positives = 57/126 (45%), Gaps = 7/126 (5%)
Frame = +1
Query: 265 FCRSFNQCDNWKKIFGKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLL 444
FC S W IFG+ +EL V SP T+FLP E+ A T +CL+
Sbjct: 114 FCASHIGLPAW--IFGEGIELTVLGQP-----KASPSVTLFLPLSGELGADKA-TLVCLI 165
Query: 445 ENFFPNVIKVYWKEKNGNKVLE-------SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHK 603
+F+P+ + V WK +G+ V + S+Q N ++Y+ LT K
Sbjct: 166 SDFYPSGVTVAWK-ADGSPVTQGVETTKPSRQSNNKYAASSYLS---LTPDKWKSHSSFS 221
Query: 604 CVVKHE 621
C+V HE
Sbjct: 222 CLVTHE 227
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: 39,698,511
Number of extensions: 919552
Number of successful extensions: 2542
Number of sequences better than 1.0e-05: 9
Number of HSP's gapped: 2539
Number of HSP's successfully gapped: 11
Length of query: 394
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 289
Effective length of database: 15,374,224
Effective search space: 4443150736
Effective search space used: 4443150736
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-012493
(1183 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
***** No hits found ******
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: 24,415,156
Number of extensions: 568383
Number of successful extensions: 1474
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1473
Number of HSP's successfully gapped: 0
Length of query: 394
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 293
Effective length of database: 8,829,335
Effective search space: 2586995155
Effective search space used: 2586995155
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-012493
(1183 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
***** No hits found ******
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: 33,632,765
Number of extensions: 786063
Number of successful extensions: 2047
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2045
Number of HSP's successfully gapped: 0
Length of query: 394
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 291
Effective length of database: 12,523,851
Effective search space: 3644440641
Effective search space used: 3644440641
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-012493
(1183 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_001003806.1| TCR gamma alternate reading frame protein is... 80 4e-15
Alignment gi|NP_001003799.1| TCR gamma alternate reading frame protein is... 77 4e-14
Alignment gi|NP_002113.2| HLA class II histocompatibility antigen, DQ alp... 51 2e-06
>ref|NP_001003806.1| TCR gamma alternate reading frame protein isoform 2 [Homo sapiens].
Length = 111
Score = 80.1 bits (196), Expect = 4e-15
Identities = 35/66 (53%), Positives = 49/66 (74%)
Frame = +1
Query: 529 MRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEIIFPSVNEVVSSAVMPTDSP 708
M+T +TYMKFSWLTV + ++DKEH+C+V+HE N+ GVDQEIIFP + + V+ D
Sbjct: 1 MKTNDTYMKFSWLTVPEKSLDKEHRCIVRHENNKNGVDQEIIFPP----IKTDVITMDPK 56
Query: 709 NDCLKD 726
++C KD
Sbjct: 57 DNCSKD 62
>ref|NP_001003799.1| TCR gamma alternate reading frame protein isoform 1 [Homo sapiens].
Length = 58
Score = 76.6 bits (187), Expect = 4e-14
Identities = 38/58 (65%), Positives = 44/58 (75%)
Frame = +2
Query: 356 LQTFPPSPQCFFLRLLR*SSIMLEHTFVFWRIFFLMLLRFIGKKRMATKSWNPSREIP 529
+Q FPPSP FFL+LL+ SS LEHTFVF R F LMLLR+IGKKR AT+ W+P R P
Sbjct: 1 MQMFPPSPLFFFLQLLKQSSRRLEHTFVFLRNFSLMLLRYIGKKRRATRFWDPRRGTP 58
>ref|NP_002113.2| HLA class II histocompatibility antigen, DQ alpha 1 chain precursor
[Homo sapiens].
Length = 255
Score = 51.2 bits (121), Expect = 2e-06
Identities = 34/114 (29%), Positives = 62/114 (54%), Gaps = 2/114 (1%)
Frame = +1
Query: 319 LELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEKNGN 498
L +++ Y+ A++ P+ TVF S + + L T +CL++N FP V+ + W NG
Sbjct: 96 LNIMIKRYNSTAATNEVPEVTVF--SKSPVTLGQPNTLICLVDNIFPPVVNITWL-SNGQ 152
Query: 499 KVLE--SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEII 654
V E S+ ++ +++ K S+LT +A D+ + C V+H G+DQ ++
Sbjct: 153 SVTEGVSETSFLSKSDHSFFKISYLTFLPSA-DEIYDCKVEH----WGLDQPLL 201
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: 39,215,820
Number of extensions: 917235
Number of successful extensions: 2432
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2429
Number of HSP's successfully gapped: 4
Length of query: 394
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 289
Effective length of database: 14,835,944
Effective search space: 4287587816
Effective search space used: 4287587816
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 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-012493
(1183 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_Chr09 615 e-173
>Sscrofa_Chr09
|| Length = 153670197
Score = 615 bits (310), Expect = e-173
Identities = 351/362 (96%), Gaps = 2/362 (0%)
Strand = Plus / Minus
Query: 824 ataccctgcagctgcagctcgagaacacctctgcctactacacctacctcctcctcctcc 883
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119543146 ataccctgcagctgcagctcgagaacacctctgcctactacacctacctcctcctcctcc 119543087
Query: 884 tcaagagtaccctctacttcgccaccaccatctcctgtctgtttaggagaacagtctgca 943
|||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119543086 tcaagagttccctctacttcgccaccaccatctcctgtctgtttaggagaacagtctgca 119543027
Query: 944 gcagtgggaagacctcctgacagatgctgccaccaagggctcaacttcgcttcagcatca 1003
||||||| |||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 119543026 gcagtggcaagacctcctgacagatgatgccaccaagggctcaacttcgcttcagcatca 119542967
Query: 1004 ttgtctctacaagtgtctgctgaggatctagctgggcttcctttctgggtttgggctctt 1063
|||||||||||||||||||||||||||||||||||||||||||||||||||||| || |
Sbjct: 119542966 ttgtctctacaagtgtctgctgaggatctagctgggcttcctttctgggtttggcttcct 119542907
Query: 1064 tcagag-atgtgtacatctttctattatgtcaacattgtgtaggttttttcaaaccactg 1122
|||||| |||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 119542906 tcagagaatgtgtacatctttgtattatgtcaacattgtgtaggttttttcaaaccactg 119542847
Query: 1123 ggcaaacagacccttgcactgcataa-caggaattctgccatgactcagggcagggctga 1181
|||||||||||||||||||||||||| ||||||||||||||||||| ||||||||||||
Sbjct: 119542846 ggcaaacagacccttgcactgcataataaggaattctgccatgactcggggcagggctga 119542787
Query: 1182 gg 1183
||
Sbjct: 119542786 gg 119542785
Score = 593 bits (299), Expect = e-167
Identities = 334/344 (97%), Gaps = 5/344 (1%)
Strand = Plus / Minus
Query: 1 ctggtaatttagaaaagcaggtggttaaccagttggtgctgaactcttcttttcctgctt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119588854 ctggtaatttagaaaagcaggtggttaaccagttggtgctgaactcttcttttcctgctt 119588795
Query: 61 ttatgctttcatcttttatcggtgttttcaaagactgcttctctgtggaaaacagacatt 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119588794 ttatgctttcatcttttatcggtgttttcaaagactgcttctctgtggaaaacagacatt 119588735
Query: 121 tcggcccataaatctgaagaaaacttaaaacatcagatgccatgaaagctatattcaagg 180
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119588734 ttggcccataaatctgaagaaaacttaaaacatcagatgccatgaaagctatattcaagg 119588675
Query: 181 actttcaaaggcacccagaagatcaaactgccagcaaagatttctaactgctactcatgt 240
||||||||||||||||||||||||||||||||||||||| ||| ||| |||||||||
Sbjct: 119588674 actttcaaaggcacccagaagatcaaactgccagcaaagtttt----ctgttactcatgt 119588619
Query: 241 tgtgaacctaggagaagctgggttttttgtaggagctttaaccagtgtgat-aactggaa 299
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 119588618 tgtgaacctaggagaagctgggttttttgtaggagctttaaccagtgtgataaactggaa 119588559
Query: 300 gaagatatttggaaaggcactggagctcatagtagctccctatg 343
||||||||||| ||||||||||||||||||||| ||||||||||
Sbjct: 119588558 gaagatatttgaaaaggcactggagctcatagttgctccctatg 119588515
Score = 591 bits (298), Expect = e-166
Identities = 321/331 (96%)
Strand = Plus / Minus
Query: 343 gatataaaccttgcttcagacctttcccccaagcccacagtgtttcttccttcgattgct 402
||||||||||||||||||||| |||| |||||||||||||||||||||||||||||||||
Sbjct: 119585607 gatataaaccttgcttcagacatttctcccaagcccacagtgtttcttccttcgattgct 119585548
Query: 403 gagataaagctccataatgctggaacatacctttgtcttctggagaannnnnnncctaat 462
||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 119585547 gagataaagctccataatgctggaacatacctttgtcttctggagaattttttccctaat 119585488
Query: 463 gttattaaggtttattggaaagaaaagaatggcaacaaagtcctggaatcccagcaggga 522
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119585487 gttattaaggtttattggaaagaaaagaatggcaacaaagtcctggaatcccagcaggga 119585428
Query: 523 aataccatgaggacgactaacacatacatgaaattcagctggttgactgtgagcaaaaca 582
||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 119585427 aataccatgaggacgactaacacatacatgaaattcagctggttgactgtgagcaaacca 119585368
Query: 583 gccatggataaagaacacaagtgtgtcgtcaaacacgagaaaaatagagggggagttgat 642
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119585367 gccatggataaagaacacaagtgtgtcgtcaaacacgagaaaaatagagggggagttgat 119585308
Query: 643 caagagattatttttccttcagtgaatgaag 673
|||||||||||||||||||||||||||||||
Sbjct: 119585307 caagagattatttttccttcagtgaatgaag 119585277
Score = 464 bits (234), Expect = e-128
Identities = 330/358 (92%), Gaps = 3/358 (0%)
Strand = Plus / Minus
Query: 829 ctgcagctgcagctcgagaacacctctgcctactacacctacctcctcctcctcctcaag 888
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119581083 ctgcagctgcagctcgagaacacctctgcctactacacctacctcctcctcctcctcaag 119581024
Query: 889 agtaccctctacttcgccaccaccatctcctgtctgtttaggagaacagtctgcagcagt 948
|||||||||||||| |||| || || || |||||||||||||||||||||||||||||||
Sbjct: 119581023 agtaccctctactttgccatcatcacctgctgtctgtttaggagaacagtctgcagcagt 119580964
Query: 949 gggaagacctcctgacagatgctgccaccaagggctcaacttcgcttcagcatcattgtc 1008
||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 119580963 gggaagacctcctgacagatgatgccaccaagggctcaacttcgcttcagcatcattgtc 119580904
Query: 1009 tctacaagtgtctgctgaggatctagctgggcttcctttctgggtttgggctctttcaga 1068
||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct: 119580903 tctacaagtgtctgctgaggatctagctgggcttcctttctgggtttggcttctttcaga 119580844
Query: 1069 g-atgtgtacatctttctattatgtcaacattgtgt-aggttttttcaaaccactgggca 1126
| || ||||||||||| |||||| ||| || |||| ||| |||||||| ||| ||| ||
Sbjct: 119580843 gaatatgtacatctttgtattatatcattatagtgtaaggatttttcaatccaatggcca 119580784
Query: 1127 aacagacccttgcactgcataac-aggaattctgccatgactcagggcagggctgagg 1183
|||||| | || |||| |||| |||||| |||||||||||||||||||||||||||
Sbjct: 119580783 aacagaacactgtactgtttaacaaggaatcctgccatgactcagggcagggctgagg 119580726
Score = 309 bits (156), Expect = 2e-81
Identities = 313/360 (86%), Gaps = 9/360 (2%)
Strand = Plus / Minus
Query: 830 tgcagctgcagctcgagaacacctctgcctactacacctacctcctcctcctcctcaaga 889
|||| ||||||||| |||||||||||||| |||||||||||||| || ||||||||||
Sbjct: 119612357 tgcaactgcagctcacaaacacctctgcctattacacctacctccttctactcctcaaga 119612298
Query: 890 gtaccctctacttcgccaccaccatctcctgtctgtttagg---agaacagtctgcagca 946
| ||||||||||||||| || || || |||||||||| | | ||||||||| |||
Sbjct: 119612297 gcgccctctacttcgccatcatcacctactgtctgtttcgagaaacaacagtctgtagcg 119612238
Query: 947 gtgggaagacctcctgacagatgctgccaccaagggctcaacttcgcttcagcatcattg 1006
|||||| |||||||||||| |||||||||||||||||||| ||||| ||||||
Sbjct: 119612237 cctggaagaggtcctgacagatgatgccaccaagggctcaactttccttcatcatcat-- 119612180
Query: 1007 tctctacaagtgtctgctgaggatctagctgggcttcctttctgggtttgggctctttca 1066
||||||||||||||| |||||||||||| | |||||||||||||||||| |||||||
Sbjct: 119612179 -ctctacaagtgtctgttgaggatctagcagcacttcctttctgggtttggcttctttca 119612121
Query: 1067 gaga-tgtgtacatctttctattatgtcaacattgtgta-ggttttttcaaaccactggg 1124
|||| ||||||||||||||| ||| |||| ||||||||| || |||||||||||||||||
Sbjct: 119612120 gagaatgtgtacatctttctgttaggtcatcattgtgtaaggatttttcaaaccactggg 119612061
Query: 1125 caaacagacccttgcactgcataac-aggaattctgccatgactcagggcagggctgagg 1183
||||||||||||||||||||||||| ||||||||||||||||||| ||||||||||||||
Sbjct: 119612060 caaacagacccttgcactgcataacaaggaattctgccatgactcggggcagggctgagg 119612001
Score = 184 bits (93), Expect = 7e-44
Identities = 251/306 (82%)
Strand = Plus / Minus
Query: 368 cccccaagcccacagtgtttcttccttcgattgctgagataaagctccataatgctggaa 427
||||||||||||| || || |||||||| |||||||||||| ||| | ||| | |||||
Sbjct: 119550315 cccccaagcccactgttttccttccttcaattgctgagatagagcactctaaggttggaa 119550256
Query: 428 catacctttgtcttctggagaannnnnnncctaatgttattaaggtttattggaaagaaa 487
|||||||||||||||||||||| ||||||| |||| ||||||||||||||||||
Sbjct: 119550255 catacctttgtcttctggagaagtttttccctaatgctattcaggtttattggaaagaaa 119550196
Query: 488 agaatggcaacaaagtcctggaatcccagcagggaaataccatgaggacgactaacacat 547
|||||| ||||| ||| ||||||||| ||| ||||| ||| ||| ||| | ||||||
Sbjct: 119550195 agaatgacaacagagttctggaatccatgcaaggaaacaccgtgaagactgatgacacat 119550136
Query: 548 acatgaaattcagctggttgactgtgagcaaaacagccatggataaagaacacaagtgtg 607
||||||||||||||||| |||||||||| || |||||| ||||||||||| |||
Sbjct: 119550135 acatgaaattcagctggctgactgtgagtgaagagtccatgggtaaagaacacatatgtt 119550076
Query: 608 tcgtcaaacacgagaaaaatagagggggagttgatcaagagattatttttccttcagtga 667
|||||||||| |||||||| |||| | | || ||| |||||| ||||||||||| | |
Sbjct: 119550075 tcgtcaaacatgagaaaaacagagtagaacctgttcaggagattctttttccttcaatta 119550016
Query: 668 atgaag 673
||||||
Sbjct: 119550015 atgaag 119550010
Score = 125 bits (63), Expect = 6e-26
Identities = 149/180 (82%)
Strand = Plus / Minus
Query: 343 gatataaaccttgcttcagacctttcccccaagcccacagtgtttcttccttcgattgct 402
|||| |||||||||| ||||| | ||||| |||||||| | ||||||||||||||||||
Sbjct: 119616494 gatagaaaccttgctgcagacatgtcccctaagcccactatatttcttccttcgattgct 119616435
Query: 403 gagataaagctccataatgctggaacatacctttgtcttctggagaannnnnnncctaat 462
|| ||||| |||||||| |||| ||| | ||||||||||| ||||| ||| ||
Sbjct: 119616434 gaaataaacctccataacactgggacacatctttgtcttcttgagaaatttttccctgat 119616375
Query: 463 gttattaaggtttattggaaagaaaagaatggcaacaaagtcctggaatcccagcaggga 522
| ||||||||| ||||||||||||||||||||||| | || ||||| ||||||||||||
Sbjct: 119616374 gctattaaggtatattggaaagaaaagaatggcaatacggttctggattcccagcaggga 119616315
Score = 123 bits (62), Expect = 2e-25
Identities = 62/62 (100%)
Strand = Plus / Minus
Query: 672 agttgtctcctcagctgtcatgcctactgattctccaaatgattgcttgaaggatgaaag 731
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119546536 agttgtctcctcagctgtcatgcctactgattctccaaatgattgcttgaaggatgaaag 119546477
Query: 732 ta 733
||
Sbjct: 119546476 ta 119546475
Score = 95.6 bits (48), Expect = 5e-17
Identities = 48/48 (100%)
Strand = Plus / Minus
Query: 734 aagtctctgatagtgattctagaaaggcctgtgtaagaaatgaaagtg 781
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119545639 aagtctctgatagtgattctagaaaggcctgtgtaagaaatgaaagtg 119545592
Score = 89.7 bits (45), Expect = 3e-15
Identities = 121/144 (84%), Gaps = 3/144 (2%)
Strand = Plus / Minus
Query: 152 atcagatgccatgaaagctatattcaaggactttcaaaggcacccagaagatcaaactgc 211
||||||||||||||| ||||||||||||||||||||| | |||||| |||| ||| | |
Sbjct: 119622918 atcagatgccatgaagcctatattcaaggactttcaaaagaacccaggagataaaattac 119622859
Query: 212 cag--caaagatttctaactgctactcatgttgtgaacctaggagaa-gctgggtttttt 268
||| |||| ||| |||||||| |||||| |||| ||||||||| ||| | |||||
Sbjct: 119622858 cagaagaaaggtttaaaactgctagtcatgtcatgaagctaggagaaggctaaggttttt 119622799
Query: 269 gtaggagctttaaccagtgtgata 292
|||||||||||||||||||||||
Sbjct: 119622798 ataggagctttaaccagtgtgata 119622775
Score = 77.8 bits (39), Expect = 1e-11
Identities = 39/39 (100%)
Strand = Plus / Minus
Query: 785 tcactaattctacaaaagcttgtctgaaagatgaaagca 823
|||||||||||||||||||||||||||||||||||||||
Sbjct: 119545305 tcactaattctacaaaagcttgtctgaaagatgaaagca 119545267
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: 43,253,230
Number of extensions: 414
Number of successful extensions: 414
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 400
Number of HSP's successfully gapped: 12
Length of query: 1183
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1162
Effective length of database: 2,808,413,156
Effective search space: 3263376087272
Effective search space used: 3263376087272
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)