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-012499
(1271 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... 181 2e-45
Alignment gi|XP_851630.1| PREDICTED: similar to T-cell receptor gamma cha... 176 4e-44
Alignment gi|XP_851696.1| PREDICTED: similar to T-cell receptor gamma cha... 169 7e-42
Alignment gi|XP_851622.1| PREDICTED: similar to T-cell receptor gamma cha... 168 1e-41
Alignment gi|XP_851648.1| PREDICTED: similar to T-cell receptor gamma cha... 163 3e-40
Alignment gi|XP_851583.1| PREDICTED: similar to T-cell receptor gamma cha... 147 2e-35
Alignment gi|XP_858938.1| PREDICTED: similar to immunoglobulin iota chain... 54 4e-07
Alignment gi|XP_857994.1| PREDICTED: similar to immunoglobulin iota chain... 54 4e-07
Alignment gi|XP_857473.1| PREDICTED: similar to immunoglobulin iota chain... 54 4e-07
Alignment gi|XP_858242.1| PREDICTED: similar to immunoglobulin iota chain... 53 5e-07
>ref|XP_851677.1| PREDICTED: similar to T-cell receptor gamma chain C region DFL12
[Canis familiaris].
Length = 415
Score = 181 bits (458), Expect = 2e-45
Identities = 97/190 (51%), Positives = 122/190 (64%)
Frame = +3
Query: 477 WKKIFEKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKV 656
W KIF + +LIV P D NL SPKPT+FLPSIAE LHNAGTYLCLLENFFP+VIK+
Sbjct: 227 WIKIFGEGTKLIVTPSDRNLNVGTSPKPTIFLPSIAETTLHNAGTYLCLLENFFPDVIKI 286
Query: 657 YWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEII 836
WKEKN VL+SQQG+T++T +TYMKFSWLTV+ +++KE+KC++KHE+N+GGV+QEI+
Sbjct: 287 DWKEKNDKTVLKSQQGDTIKTYDTYMKFSWLTVTGVSVNKEYKCIIKHERNKGGVEQEIL 346
Query: 837 FPXXXXXXXXXXXXXXXXXDCLNDGSKATGIDSEKACKKDHSEVTDTDSKKVCQKDESNS 1016
FP S+K E+T S K + E +
Sbjct: 347 FP------------------------------SQK------KELTAITSAKPSMRYEDDV 370
Query: 1017 LQLQLENTSA 1046
LQLQL NTSA
Sbjct: 371 LQLQLMNTSA 380
>ref|XP_851630.1| PREDICTED: similar to T-cell receptor gamma chain C region C10.5
[Canis familiaris].
Length = 347
Score = 176 bits (446), Expect = 4e-44
Identities = 103/253 (40%), Positives = 142/253 (56%), Gaps = 5/253 (1%)
Frame = +3
Query: 405 LTVTHVMNLGEAGFFVGALTSVINWKKIFEKALELIVAPYDINLASDLSPKPTVFLPSIA 584
L V + E ++ A V W K+F L V D+SPKPT+FLPSIA
Sbjct: 102 LLVQRLRKSDEGVYYCAAWEPVSKWNKVFGPGTTLRVTDKS---PEDISPKPTIFLPSIA 158
Query: 585 EIKLHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKT 764
EIK+H AGTYLC LE P+V K+ WKEKN +L+SQQGNT++T +TYMKFSW+ V++
Sbjct: 159 EIKVHKAGTYLCHLEENIPDVFKIDWKEKNVKTILQSQQGNTVKTEDTYMKFSWVIVTEE 218
Query: 765 AMDKEHKCVVKHEKNRGGVDQEIIFPXXXXXXXXXXXXXXXXXDCLNDGSKATGID---- 932
++DKEH+C+VK E+N+ V+QEI FP C+++ +ATG+
Sbjct: 219 SLDKEHQCIVKDERNKERVNQEIDFPSINKDLSSILSLSL----CMSENLRATGLTNLTR 274
Query: 933 SEKACKKDHSEVTDTDSKKVCQKDESNSLQLQLENTSAXXXXXXXXXXXXXXFAIITCCL 1112
S KA + ++T +S + DE+++LQLQL NTSA IIT CL
Sbjct: 275 SRKAALEATQKLTAINSTEAFLDDENHTLQLQLMNTSAYYTYLLLLLKSLMYSIIITICL 334
Query: 1113 FRRTVC-SSGKTS 1148
R V +GK+S
Sbjct: 335 LGRPVLDGNGKSS 347
>ref|XP_851696.1| PREDICTED: similar to T-cell receptor gamma chain C region DFL12
[Canis familiaris].
Length = 313
Score = 169 bits (427), Expect = 7e-42
Identities = 108/280 (38%), Positives = 146/280 (52%), Gaps = 4/280 (1%)
Frame = +3
Query: 321 KLKTSDAMKSYIQGLSKAPRRSNCQQSFLTVTHVMNLGEAGFFVGALTSVIN-WK--KIF 491
K+ + D K+ ++ A + + S L + + EA ++ S W+ K+F
Sbjct: 76 KVPSLDGRKNKLE----ASKNALTSTSTLKINFLQEEDEAMYYCSCWNSETEVWRRIKVF 131
Query: 492 EKALELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEK 671
+L+V D +L +D SPKPT F PSIAE LHNAGTYLCLLENFF +VIK+ WKEK
Sbjct: 132 GPGTKLMVT--DRSLDADNSPKPTTFFPSIAETTLHNAGTYLCLLENFFRDVIKIDWKEK 189
Query: 672 NGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEIIFPXXX 851
+G + +SQQGNTM+T +T+MKFSWLTV +MDK +KCV+KHE+N+G VDQEI+F
Sbjct: 190 SGKTIPQSQQGNTMKTKDTFMKFSWLTVMGASMDKGYKCVIKHERNKGRVDQEILF---- 245
Query: 852 XXXXXXXXXXXXXXDCLNDGSKATGIDSEKACKKDHSEVTDTDSKKVCQKDESNSLQLQL 1031
E+T S K KD+++ LQLQL
Sbjct: 246 --------------------------------SSQIKELTAITSTKYSLKDKNDPLQLQL 273
Query: 1032 ENTSAXXXXXXXXXXXXXXFAIITCCLF-RRTVCSSGKTS 1148
NTSA +IT L R C +GK+S
Sbjct: 274 MNTSAYYTYLLLLLKSLVYSVVITFYLLGRPAFCGNGKSS 313
>ref|XP_851622.1| PREDICTED: similar to T-cell receptor gamma chain C region DFL12
[Canis familiaris].
Length = 353
Score = 168 bits (425), Expect = 1e-41
Identities = 79/125 (63%), Positives = 97/125 (77%), Gaps = 2/125 (1%)
Frame = +3
Query: 474 NWKKIFEKALE--LIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNV 647
+W + K L I+ D + D SPKPTVFLPSI+EIK+H AGTYLCLLE+FFP +
Sbjct: 117 DWSGWYNKVLGPGTILRVTDKSANEDTSPKPTVFLPSISEIKIHKAGTYLCLLEDFFPEI 176
Query: 648 IKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQ 827
IKV WKEKN VL+SQQGNTM+T +TYMKFSWLTV+ +MDKEHKC+V HE +RGG++Q
Sbjct: 177 IKVDWKEKNDQTVLQSQQGNTMKTKDTYMKFSWLTVTGASMDKEHKCIVNHESDRGGINQ 236
Query: 828 EIIFP 842
EI+FP
Sbjct: 237 EILFP 241
>ref|XP_851648.1| PREDICTED: similar to T-cell receptor gamma chain C region C10.5
[Canis familiaris].
Length = 400
Score = 163 bits (413), Expect = 3e-40
Identities = 82/146 (56%), Positives = 104/146 (71%)
Frame = +3
Query: 405 LTVTHVMNLGEAGFFVGALTSVINWKKIFEKALELIVAPYDINLASDLSPKPTVFLPSIA 584
L V + EA ++ S+ + K+F L V D N D+ PKPTVFLPSI
Sbjct: 249 LLVLKLKKNDEAVYYCATWESLDRYNKVFGPGTVLRVT--DKNPDEDIPPKPTVFLPSIT 306
Query: 585 EIKLHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKT 764
EIK HN GTYLCLLE+FFP+VIK+ WKEK+ VL+SQQG+TM+T +TYMKFSWLTV++
Sbjct: 307 EIKDHNTGTYLCLLEDFFPDVIKIDWKEKDDKTVLQSQQGDTMKTKDTYMKFSWLTVTQE 366
Query: 765 AMDKEHKCVVKHEKNRGGVDQEIIFP 842
+M K+HKC+VKHE+N+G VDQEI FP
Sbjct: 367 SMAKDHKCMVKHERNKGRVDQEIDFP 392
>ref|XP_851583.1| PREDICTED: similar to T-cell receptor gamma chain C region C10.5
[Canis familiaris].
Length = 465
Score = 147 bits (372), Expect = 2e-35
Identities = 63/100 (63%), Positives = 84/100 (84%)
Frame = +3
Query: 543 DLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLESQQGNTMRTT 722
D+SPKPT+FLPSIAEIK H GTY+CLLE+ P++ K+ WKEKN +L+SQQGNT++T
Sbjct: 222 DISPKPTIFLPSIAEIKAHQVGTYICLLEDIIPDIFKIDWKEKNSKTILQSQQGNTVKTK 281
Query: 723 NTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEIIFP 842
+TYMKFSW+TV++ +MDKEH+C+VK E+N+ V+QEI FP
Sbjct: 282 DTYMKFSWVTVTEKSMDKEHQCIVKDERNKERVNQEIDFP 321
Score = 91.7 bits (226), Expect = 1e-18
Identities = 40/61 (65%), Positives = 51/61 (83%)
Frame = +3
Query: 660 WKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEIIF 839
WKE NG +L+SQQG+TM+T + YMKFSWLTV+ +MD EHK +VKH+ N+GGVDQEI+F
Sbjct: 35 WKE-NGRTILQSQQGDTMKTKDKYMKFSWLTVTDVSMDNEHKSIVKHKSNKGGVDQEILF 93
Query: 840 P 842
P
Sbjct: 94 P 94
>ref|XP_858938.1| PREDICTED: similar to immunoglobulin iota chain preproprotein
isoform 39 [Canis familiaris].
Length = 242
Score = 53.5 bits (127), Expect = 4e-07
Identities = 45/161 (27%), Positives = 73/161 (45%), Gaps = 12/161 (7%)
Frame = +3
Query: 357 QGLSKAPRRSNCQQ-----SFLTVTHVMNLGEAGFFVGALTSVINWKKIFEKALELIVAP 521
QG +PR S + +L+++ + EA +F + TS W +F + +EL V
Sbjct: 79 QGFKISPRFSGSKDVAKNTGYLSISELQPEDEATYFCTSNTSTSPWF-VFSEGIELTVLG 137
Query: 522 YDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLE--- 692
SP T+FLP E+ A T +CL+ +F+P+ + V WK +G+ V +
Sbjct: 138 QP-----KASPSVTLFLPLSGELGADKA-TLVCLISDFYPSGVTVAWK-ADGSPVTQGVE 190
Query: 693 ----SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHE 803
S+Q N ++Y+ LT K C+V HE
Sbjct: 191 TTKPSRQSNNKYAASSYLS---LTPDKWKSHSSFSCLVTHE 228
>ref|XP_857994.1| PREDICTED: similar to immunoglobulin iota chain preproprotein
isoform 16 [Canis familiaris].
Length = 243
Score = 53.5 bits (127), Expect = 4e-07
Identities = 44/161 (27%), Positives = 72/161 (44%), Gaps = 12/161 (7%)
Frame = +3
Query: 357 QGLSKAPRRSNCQQ-----SFLTVTHVMNLGEAGFFVGALTSVINWKKIFEKALELIVAP 521
QG +PR S + +L+++ + EA +F A S + +F + +EL V
Sbjct: 79 QGFKISPRFSGSKDVAKNTGYLSISELQPEDEATYFCAAWPSSLGVHVVFGEGIELTVLG 138
Query: 522 YDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLE--- 692
SP T+FLP E+ A T +CL+ +F+P+ + V WK +G+ V +
Sbjct: 139 QP-----KASPSVTLFLPLSGELGADKA-TLVCLISDFYPSGVTVAWK-ADGSPVTQGVE 191
Query: 693 ----SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHE 803
S+Q N ++Y+ LT K C+V HE
Sbjct: 192 TTKPSRQSNNKYAASSYLS---LTPDKWKSHSSFSCLVTHE 229
>ref|XP_857473.1| PREDICTED: similar to immunoglobulin iota chain preproprotein
isoform 3 [Canis familiaris].
Length = 242
Score = 53.5 bits (127), Expect = 4e-07
Identities = 45/161 (27%), Positives = 74/161 (45%), Gaps = 12/161 (7%)
Frame = +3
Query: 357 QGLSKAPRRSNCQQ-----SFLTVTHVMNLGEAGFFVGALTSVINWKKIFEKALELIVAP 521
QG +PR S + +L+++ + EA +F A S ++ K +F + +EL V
Sbjct: 79 QGFKISPRFSGSKDVAKNTGYLSISELQPEDEATYFCAAWPSSLS-KSVFGEGIELTVLG 137
Query: 522 YDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLE--- 692
SP T+FLP E+ A T +CL+ +F+P+ + V WK +G+ V +
Sbjct: 138 QP-----KASPSVTLFLPLSGELGADKA-TLVCLISDFYPSGVTVAWK-ADGSPVTQGVE 190
Query: 693 ----SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHE 803
S+Q N ++Y+ LT K C+V HE
Sbjct: 191 TTKPSRQSNNKYAASSYLS---LTPDKWKSHSSFSCLVTHE 228
>ref|XP_858242.1| PREDICTED: similar to immunoglobulin iota chain preproprotein
isoform 22 [Canis familiaris].
Length = 242
Score = 53.1 bits (126), Expect = 5e-07
Identities = 47/162 (29%), Positives = 74/162 (45%), Gaps = 13/162 (8%)
Frame = +3
Query: 357 QGLSKAPRRSNCQQ-----SFLTVTHVMNLGEAGFFVGALTSVIN-WKKIFEKALELIVA 518
QG +PR S + +L+++ + EA +F A S +N W IF + +EL V
Sbjct: 79 QGFKISPRFSGSKDVAKNTGYLSISELQPEDEATYFCAAWPSSLNVW--IFGEGIELTVL 136
Query: 519 PYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLE-- 692
SP T+FLP E+ A T +CL+ +F+P+ + V WK +G+ V +
Sbjct: 137 GQP-----KASPSVTLFLPLSGELGADKA-TLVCLISDFYPSGVTVAWK-ADGSPVTQGV 189
Query: 693 -----SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHE 803
S+Q N ++Y+ LT K C+V HE
Sbjct: 190 ETTKPSRQSNNKYAASSYLS---LTPDKWKSHSSFSCLVTHE 228
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: 41,518,076
Number of extensions: 918984
Number of successful extensions: 2368
Number of sequences better than 1.0e-05: 26
Number of HSP's gapped: 2364
Number of HSP's successfully gapped: 29
Length of query: 423
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 318
Effective length of database: 15,374,224
Effective search space: 4889003232
Effective search space used: 4889003232
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-012499
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-012499
(1271 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]. 205 6e-53
>ref|XP_002706483.1| PREDICTED: hypothetical protein [Bos taurus].
Length = 319
Score = 205 bits (522), Expect = 6e-53
Identities = 123/246 (50%), Positives = 151/246 (61%), Gaps = 9/246 (3%)
Frame = +3
Query: 420 VMNL--GEAGFFVGALTSVINWKKIFEKALELIVAPYDINLASDLSPKPTVFLPSIAEIK 593
++NL ++G + A+ N+ K F +LIV + NL +D SPKPTVFLPSIAEI
Sbjct: 80 ILNLQASDSGIYYCAIWDRNNYIKNFNVGAKLIVT--ERNLEADTSPKPTVFLPSIAEIN 137
Query: 594 LHNAGTYLCLLENFFPNVIKVYWKEKNGNKVLESQQGNTMRTTNTYMKFSWLTVSKTAMD 773
NAGTYLCLLE FFP+VI V W+ KN + L SQQGNTM+T +TYMKFSWLTV++ +MD
Sbjct: 138 HDNAGTYLCLLEKFFPDVITVSWRAKNDKRALPSQQGNTMKTKDTYMKFSWLTVTENSMD 197
Query: 774 KEHKCVVKHEKNRGGVDQEIIFP-----XXXXXXXXXXXXXXXXXDCLNDGSKATGIDSE 938
K+H CVVKH+KN GG+DQEIIFP DCL D S T S+
Sbjct: 198 KQHVCVVKHKKNIGGIDQEIIFPSIKEVVTSLVPTTEPPTTEPPNDCLTDES-ITDTGSK 256
Query: 939 KACKKDHSEVTDTDSKKVCQKDESNSLQLQLENTS-AXXXXXXXXXXXXXXFAIITCCLF 1115
KAC KD S DT+S K C + ES++LQLQL NTS A F +I C+F
Sbjct: 257 KACLKDGS---DTNSTKACLEGESSTLQLQLMNTSTAYYTYLLLLFLSTVYFVVIISCVF 313
Query: 1116 RRT-VC 1130
RRT VC
Sbjct: 314 RRTGVC 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: 39,751,245
Number of extensions: 891296
Number of successful extensions: 2289
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2285
Number of HSP's successfully gapped: 1
Length of query: 423
Length of database: 17,681,374
Length adjustment: 105
Effective length of query: 318
Effective length of database: 14,207,134
Effective search space: 4517868612
Effective search space used: 4517868612
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-012499
(1271 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: 25,485,217
Number of extensions: 568367
Number of successful extensions: 1436
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1436
Number of HSP's successfully gapped: 0
Length of query: 423
Length of database: 11,343,932
Length adjustment: 102
Effective length of query: 321
Effective length of database: 8,804,438
Effective search space: 2826224598
Effective search space used: 2826224598
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-012499
(1271 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: 35,080,239
Number of extensions: 786940
Number of successful extensions: 2020
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2018
Number of HSP's successfully gapped: 0
Length of query: 423
Length of database: 15,617,559
Length adjustment: 104
Effective length of query: 319
Effective length of database: 12,493,815
Effective search space: 3985526985
Effective search space used: 3985526985
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-012499
(1271 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... 101 2e-21
Alignment gi|NP_001003799.1| TCR gamma alternate reading frame protein is... 79 9e-15
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 = 101 bits (251), Expect = 2e-21
Identities = 58/147 (39%), Positives = 74/147 (50%), Gaps = 1/147 (0%)
Frame = +3
Query: 711 MRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEIIFPXXXXXXXXXXXXXXXX 890
M+T +TYMKFSWLTV + ++DKEH+C+V+HE N+ GVDQEIIFP
Sbjct: 1 MKTNDTYMKFSWLTVPEKSLDKEHRCIVRHENNKNGVDQEIIFPPI-------------- 46
Query: 891 XDCLNDGSKATGIDSEKACKKDHSEVTDTDSKKVCQKDESNSLQLQLENTSAXXXXXXXX 1070
++V D K C KD +++L LQL NTSA
Sbjct: 47 ----------------------KTDVITMDPKDNCSKDANDTLLLQLTNTSAYYMYLLLL 84
Query: 1071 XXXXXXFAIITCCLFRRTV-CSSGKTS 1148
FAIITCCL RRT C +G+ S
Sbjct: 85 LKSVVYFAIITCCLLRRTAFCCNGEKS 111
>ref|NP_001003799.1| TCR gamma alternate reading frame protein isoform 1 [Homo sapiens].
Length = 58
Score = 79.0 bits (193), Expect = 9e-15
Identities = 39/58 (67%), Positives = 45/58 (77%)
Frame = +1
Query: 538 LQTFPPSPQCFFLRLLR*SSIMLEHTFVFWRIFSLMLLRFIGKKRMATKSWNPSREIP 711
+Q FPPSP FFL+LL+ SS LEHTFVF R FSLMLLR+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 = +3
Query: 501 LELIVAPYDINLASDLSPKPTVFLPSIAEIKLHNAGTYLCLLENFFPNVIKVYWKEKNGN 680
L +++ Y+ A++ P+ TVF S + + L T +CL++N FP V+ + W NG
Sbjct: 96 LNIMIKRYNSTAATNEVPEVTVF--SKSPVTLGQPNTLICLVDNIFPPVVNITWL-SNGQ 152
Query: 681 KVLE--SQQGNTMRTTNTYMKFSWLTVSKTAMDKEHKCVVKHEKNRGGVDQEII 836
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: 40,992,885
Number of extensions: 917180
Number of successful extensions: 2405
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2402
Number of HSP's successfully gapped: 4
Length of query: 423
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 318
Effective length of database: 14,835,944
Effective search space: 4717830192
Effective search space used: 4717830192
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-012499
(1271 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 888 0.0
>Sscrofa_Chr09
|| Length = 153670197
Score = 888 bits (448), Expect = 0.0
Identities = 505/525 (96%), Gaps = 5/525 (0%)
Strand = Plus / Minus
Query: 1 atatttgcattttcagttcctgaagagcttcctcctttcagaaatgcgtttccaagtggc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119589034 atatttgcattttcagttcctgaagagcttcctcctttcagaaatgcgtttccaagtggc 119588975
Query: 61 taacagagcagccctggtgtttatgagaacagaaggttcttccctttgctgcaaaccctg 120
||||||||||||||||||| || ||||||||||||||||||||||||| |||||||||||
Sbjct: 119588974 taacagagcagccctggtgcttgtgagaacagaaggttcttccctttgatgcaaaccctg 119588915
Query: 121 agctgttttaacagagctgaacacctggnnnnnnnngtcttcattctttgaatactcttc 180
|||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 119588914 agctgttttaacagagctgaacacctggaaaaaaaagtcttcattctttgaatactcttc 119588855
Query: 181 ctggtaatttagaaaagcaggtggttaaccagttggtgctgaactcttcttttcctgctt 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119588854 ctggtaatttagaaaagcaggtggttaaccagttggtgctgaactcttcttttcctgctt 119588795
Query: 241 ttatgctttcatcttttatcggtgttttcaaagactgcttctctgtggaaaacagacatt 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119588794 ttatgctttcatcttttatcggtgttttcaaagactgcttctctgtggaaaacagacatt 119588735
Query: 301 tcggcccataaatctgaagaaaacttaaaacatcagatgccatgaaaagctatattcaag 360
| |||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 119588734 ttggcccataaatctgaagaaaacttaaaacatcagatgccatg-aaagctatattcaag 119588676
Query: 361 gactttcaaaggcacccagaaggtcaaactgccagcaaagttttctaactgttactcatg 420
|||||||||||||||||||||| ||||||||||||||||||||| ||||||||||||
Sbjct: 119588675 gactttcaaaggcacccagaagatcaaactgccagcaaagtttt----ctgttactcatg 119588620
Query: 421 ttatgaacctaggagaagctgggttttttgtaggagctttaaccagtgtgataaactgga 480
|| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119588619 ttgtgaacctaggagaagctgggttttttgtaggagctttaaccagtgtgataaactgga 119588560
Query: 481 agaagatatttgaaaaggcactggagctcatagtagctccctatg 525
|||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 119588559 agaagatatttgaaaaggcactggagctcatagttgctccctatg 119588515
Score = 632 bits (319), Expect = e-178
Identities = 328/331 (99%)
Strand = Plus / Minus
Query: 525 gatataaaccttgcttcagacctttcccccaagcccacagtgtttcttccttcgattgct 584
||||||||||||||||||||| |||| |||||||||||||||||||||||||||||||||
Sbjct: 119585607 gatataaaccttgcttcagacatttctcccaagcccacagtgtttcttccttcgattgct 119585548
Query: 585 gagataaagctccataatgctggaacatacctttgtcttctggagaattttttccctaat 644
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119585547 gagataaagctccataatgctggaacatacctttgtcttctggagaattttttccctaat 119585488
Query: 645 gttattaaggtttattggaaagaaaagaatggcaacaaagtcctggaatcccagcaggga 704
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119585487 gttattaaggtttattggaaagaaaagaatggcaacaaagtcctggaatcccagcaggga 119585428
Query: 705 aataccatgaggacgactaacacatacatgaaattcagctggttgactgtgagcaaaaca 764
||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 119585427 aataccatgaggacgactaacacatacatgaaattcagctggttgactgtgagcaaacca 119585368
Query: 765 gccatggataaagaacacaagtgtgtcgtcaaacacgagaaaaatagagggggagttgat 824
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119585367 gccatggataaagaacacaagtgtgtcgtcaaacacgagaaaaatagagggggagttgat 119585308
Query: 825 caagagattatttttccttcagtgaatgaag 855
|||||||||||||||||||||||||||||||
Sbjct: 119585307 caagagattatttttccttcagtgaatgaag 119585277
Score = 486 bits (245), Expect = e-134
Identities = 258/261 (98%), Gaps = 1/261 (0%)
Strand = Plus / Minus
Query: 1012 attcactgcagctgcagcttgagaacacctctgcctactacacctacctcctcctcctcc 1071
||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 119581088 attcactgcagctgcagctcgagaacacctctgcctactacacctacctcctcctcctcc 119581029
Query: 1072 tcaagagtaccctctactttgccatcatcacctgctgtctgtttaggagaacagtctgca 1131
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119581028 tcaagagtaccctctactttgccatcatcacctgctgtctgtttaggagaacagtctgca 119580969
Query: 1132 gcagtgggaagacctcctgacagatgatgccaccaagggctcaacttcgcttcagcatca 1191
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119580968 gcagtgggaagacctcctgacagatgatgccaccaagggctcaacttcgcttcagcatca 119580909
Query: 1192 ttgtctctaccagtgtctgctgaggatctagctgggcttcctttctgggtttggcttctt 1251
|||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119580908 ttgtctctacaagtgtctgctgaggatctagctgggcttcctttctgggtttggcttctt 119580849
Query: 1252 tcagag-atatgtacatcttt 1271
|||||| ||||||||||||||
Sbjct: 119580848 tcagagaatatgtacatcttt 119580828
Score = 404 bits (204), Expect = e-110
Identities = 244/256 (95%), Gaps = 1/256 (0%)
Strand = Plus / Minus
Query: 1017 ctgcagctgcagcttgagaacacctctgcctactacacctacctcctcctcctcctcaag 1076
|||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119543141 ctgcagctgcagctcgagaacacctctgcctactacacctacctcctcctcctcctcaag 119543082
Query: 1077 agtaccctctactttgccatcatcacctgctgtctgtttaggagaacagtctgcagcagt 1136
||| |||||||||| |||| || || || |||||||||||||||||||||||||||||||
Sbjct: 119543081 agttccctctacttcgccaccaccatctcctgtctgtttaggagaacagtctgcagcagt 119543022
Query: 1137 gggaagacctcctgacagatgatgccaccaagggctcaacttcgcttcagcatcattgtc 1196
|| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119543021 ggcaagacctcctgacagatgatgccaccaagggctcaacttcgcttcagcatcattgtc 119542962
Query: 1197 tctaccagtgtctgctgaggatctagctgggcttcctttctgggtttggcttctttcaga 1256
||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 119542961 tctacaagtgtctgctgaggatctagctgggcttcctttctgggtttggcttccttcaga 119542902
Query: 1257 g-atatgtacatcttt 1271
| || |||||||||||
Sbjct: 119542901 gaatgtgtacatcttt 119542886
Score = 218 bits (110), Expect = 6e-54
Identities = 257/306 (83%)
Strand = Plus / Minus
Query: 550 cccccaagcccacagtgtttcttccttcgattgctgagataaagctccataatgctggaa 609
||||||||||||| || || |||||||| |||||||||||| ||| | ||| | |||||
Sbjct: 119550315 cccccaagcccactgttttccttccttcaattgctgagatagagcactctaaggttggaa 119550256
Query: 610 catacctttgtcttctggagaattttttccctaatgttattaaggtttattggaaagaaa 669
|||||||||||||||||||||| ||||||||||||| |||| ||||||||||||||||||
Sbjct: 119550255 catacctttgtcttctggagaagtttttccctaatgctattcaggtttattggaaagaaa 119550196
Query: 670 agaatggcaacaaagtcctggaatcccagcagggaaataccatgaggacgactaacacat 729
|||||| ||||| ||| ||||||||| ||| ||||| ||| ||| ||| | ||||||
Sbjct: 119550195 agaatgacaacagagttctggaatccatgcaaggaaacaccgtgaagactgatgacacat 119550136
Query: 730 acatgaaattcagctggttgactgtgagcaaaacagccatggataaagaacacaagtgtg 789
||||||||||||||||| |||||||||| || |||||| ||||||||||| |||
Sbjct: 119550135 acatgaaattcagctggctgactgtgagtgaagagtccatgggtaaagaacacatatgtt 119550076
Query: 790 tcgtcaaacacgagaaaaatagagggggagttgatcaagagattatttttccttcagtga 849
|||||||||| |||||||| |||| | | || ||| |||||| ||||||||||| | |
Sbjct: 119550075 tcgtcaaacatgagaaaaacagagtagaacctgttcaggagattctttttccttcaatta 119550016
Query: 850 atgaag 855
||||||
Sbjct: 119550015 atgaag 119550010
Score = 200 bits (101), Expect = 1e-48
Identities = 208/241 (86%), Gaps = 7/241 (2%)
Strand = Plus / Minus
Query: 1035 aacacctctgcctactacacctacctcctcctcctcctcaagagtaccctctactttgcc 1094
|||||||||||||| |||||||||||||| || ||||||||||| |||||||||| |||
Sbjct: 119612340 aacacctctgcctattacacctacctccttctactcctcaagagcgccctctacttcgcc 119612281
Query: 1095 atcatcacctgctgtctgtttagg---agaacagtctgcagcagtgggaagacctcctga 1151
|||||||||| |||||||||| | | ||||||||| ||| |||||| ||||||
Sbjct: 119612280 atcatcacctactgtctgtttcgagaaacaacagtctgtagcgcctggaagaggtcctga 119612221
Query: 1152 cagatgatgccaccaagggctcaacttcgcttcagcatcattgtctctaccagtgtctgc 1211
||||||||||||||||||||||||||| ||||| |||||| |||||| ||||||||
Sbjct: 119612220 cagatgatgccaccaagggctcaactttccttcatcatcat---ctctacaagtgtctgt 119612164
Query: 1212 tgaggatctagctgggcttcctttctgggtttggcttctttcagag-atatgtacatctt 1270
|||||||||||| | |||||||||||||||||||||||||||||| || ||||||||||
Sbjct: 119612163 tgaggatctagcagcacttcctttctgggtttggcttctttcagagaatgtgtacatctt 119612104
Query: 1271 t 1271
|
Sbjct: 119612103 t 119612103
Score = 159 bits (80), Expect = 5e-36
Identities = 155/180 (86%)
Strand = Plus / Minus
Query: 525 gatataaaccttgcttcagacctttcccccaagcccacagtgtttcttccttcgattgct 584
|||| |||||||||| ||||| | ||||| |||||||| | ||||||||||||||||||
Sbjct: 119616494 gatagaaaccttgctgcagacatgtcccctaagcccactatatttcttccttcgattgct 119616435
Query: 585 gagataaagctccataatgctggaacatacctttgtcttctggagaattttttccctaat 644
|| ||||| |||||||| |||| ||| | ||||||||||| ||||| ||||||||| ||
Sbjct: 119616434 gaaataaacctccataacactgggacacatctttgtcttcttgagaaatttttccctgat 119616375
Query: 645 gttattaaggtttattggaaagaaaagaatggcaacaaagtcctggaatcccagcaggga 704
| ||||||||| ||||||||||||||||||||||| | || ||||| ||||||||||||
Sbjct: 119616374 gctattaaggtatattggaaagaaaagaatggcaatacggttctggattcccagcaggga 119616315
Score = 115 bits (58), Expect = 6e-23
Identities = 61/62 (98%)
Strand = Plus / Minus
Query: 854 agttgtcacttcagttgtcactactactgagcctccaaatgactgtttgaacgatggaag 913
||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119584403 agttgtcacctcagttgtcactactactgagcctccaaatgactgtttgaacgatggaag 119584344
Query: 914 ca 915
||
Sbjct: 119584343 ca 119584342
Score = 113 bits (57), Expect = 2e-22
Identities = 235/293 (80%), Gaps = 3/293 (1%)
Strand = Plus / Minus
Query: 2 tatttgcattttcagttcctgaagagcttcctcctttcagaaatgcgtttccaagtggct 61
|||||| |||||||||| ||||||||||||||| |||||||||| | |||| | |||
Sbjct: 119557629 tatttgtattttcagttactgaagagcttcctcttttcagaaatacacccccaaatcgct 119557570
Query: 62 aacagagcagccctggtgtttatgagaacagaaggttcttccctttgctgcaaaccctga 121
||| ||||||| |||||||| ||||||||||| | ||| |||| || ||| ||||
Sbjct: 119557569 aacgaagcagccatggtgtttgtgagaacagaaaggcctttccttgaaagc-aactctga 119557511
Query: 122 gctgttttaacagagctgaacacctggnnnnnnnngtcttcattctttgaatactcttcc 181
|| |||| | ||||| |||||||||| ||||| |||||||||||||| ||||
Sbjct: 119557510 gccgtttcagaagagcagaacacctggaaataaaagtcttaattctttgaatactattcc 119557451
Query: 182 tggtaatttagaaaagcaggtggttaaccagttggtgctgaactcttcttttcctgcttt 241
||| |||||||||||||||| ||||| ||||||||| | | |||||||||||||||
Sbjct: 119557450 tggaaatttagaaaagcaggcagttaa-cagttggtgtcaatcagttcttttcctgcttt 119557392
Query: 242 tatgctttcatcttt-tatcggtgttttcaaagactgcttctctgtggaaaac 293
|| ||||||||||| | || |||||||||| |||| || ||||||||||||
Sbjct: 119557391 tagactttcatctttctttcagtgttttcaatgactatttttctgtggaaaac 119557339
Score = 95.6 bits (48), Expect = 6e-17
Identities = 48/48 (100%)
Strand = Plus / Minus
Query: 916 aagccactggtattgattctgaaaaagcttgtaagaaagatcacagtg 963
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 119583796 aagccactggtattgattctgaaaaagcttgtaagaaagatcacagtg 119583749
Score = 89.7 bits (45), Expect = 3e-15
Identities = 48/49 (97%)
Strand = Plus / Minus
Query: 963 gaagtcactgatactgattccaaaaaagtttgtcagaaagatgaaagca 1011
|||||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct: 119583456 gaagtcactgttactgattccaaaaaagtttgtcagaaagatgaaagca 119583408
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: 48,492,036
Number of extensions: 499
Number of successful extensions: 499
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 494
Number of HSP's successfully gapped: 14
Length of query: 1271
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1250
Effective length of database: 2,808,413,156
Effective search space: 3510516445000
Effective search space used: 3510516445000
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)