BLAST2 result
TBLASTN 2.2.2 [Dec-14-2001]
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= TM0110a.16
(1427 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
BP075943 147 9e-36
BP066094 102 7e-25
AV409763 105 7e-23
AU088980 100 1e-21
AV424544 91 1e-18
BP063694 90 3e-18
BP033602 86 4e-17
BP054557 83 3e-16
AV766088 82 8e-16
AV410378 81 1e-15
TC12832 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 73 3e-13
TC13132 similar to UP|Q9FJA1 (Q9FJA1) Similarity to retroelement... 69 5e-12
BP078157 67 2e-11
BP035283 66 3e-11
AV411594 59 5e-11
TC11361 64 2e-10
AV779929 63 3e-10
AV427921 61 1e-09
BI418295 56 5e-08
BP058111 50 2e-06
>BP075943
Length = 547
Score = 147 bits (372), Expect = 9e-36
Identities = 84/182 (46%), Positives = 112/182 (61%), Gaps = 4/182 (2%)
Frame = -3
Query: 1103 SGDTFVVLLVYVNDIIVSGPNATEIDSVKQLLKSAFKLKDLGKLKFFLGLEIAYSATGIS 1162
S +F LL+YV+D++++G + EI VK L F++KDLG+ K+FLGLEIA S +GI
Sbjct: 542 SSGSFTALLLYVDDVLLAGNDMHEIQLVKSSLHDQFRIKDLGEAKYFLGLEIARSTSGIV 363
Query: 1163 LSQRAYALSLLHDTGFTDCRPTSLPMDPNLK-LSSDTGPELADSSQYRRLIGRLLYLTIS 1221
L+QR YAL L+ D+G +P N + L ++TG L D YRR++GRLLYL +
Sbjct: 362 LNQRKYALQLISDSGHFGFQPRFYSHGTNSQTLGTNTGTPLTDIGSYRRIVGRLLYLNTT 183
Query: 1222 RPDIAFTMNKLSQFLSKPTTTHLDALHHLLRYLKTTPGQGFFFLGQQPPLSQLT---PML 1278
RPDI F +N+LSQFLS PT H L L+YL +PG G F+ P S T P L
Sbjct: 182 RPDITFAVNQLSQFLSAPTDIHEQQLTGFLKYL*GSPGSGLFY-----PASSSTL*LPSL 18
Query: 1279 IG 1280
IG
Sbjct: 17 IG 12
>BP066094
Length = 532
Score = 102 bits (253), Expect(2) = 7e-25
Identities = 51/149 (34%), Positives = 91/149 (60%), Gaps = 1/149 (0%)
Frame = +2
Query: 1006 AKITTVRMLLALAAMYKWELFQLDINNAFLNGDLFEEVYMKIPQGY-DVKGENLTCRLKK 1064
+K +R+L++ + + L Q+++ +AFLNG + EEVY+ P G D K + +LKK
Sbjct: 86 SKTEAIRLLISFSVNHNIILHQMNVKSAFLNGYISEEVYVHQPPGXEDEKNSDHIFKLKK 265
Query: 1065 SIYGLKQASRQWFAKFSSVLTQHGFQHSYHDYSLFTKGSGDTFVVLLVYVNDIIVSGPNA 1124
S+YGLKQA R W+ + SS L ++ D +LF K D +++ +YV+DII N
Sbjct: 266 SLYGLKQAPRAWYERLSSFLLENEXVRGKVDTTLFCKTYKDDILIVQIYVDDIIFGSANP 445
Query: 1125 TEIDSVKQLLKSAFKLKDLGKLKFFLGLE 1153
+ +++++ F+++ +G+LK+FLG++
Sbjct: 446 SLCKEFSEMMQAEFEMRMMGELKYFLGIQ 532
Score = 30.4 bits (67), Expect(2) = 7e-25
Identities = 12/18 (66%), Positives = 16/18 (88%)
Frame = +3
Query: 990 YTQQNGIDYMDTFSPVAK 1007
Y+QQ GIDY +TF+PVA+
Sbjct: 39 YSQQ*GIDYTETFAPVAR 92
>AV409763
Length = 426
Score = 105 bits (261), Expect = 7e-23
Identities = 47/84 (55%), Positives = 62/84 (72%)
Frame = +2
Query: 22 SNPFFLHHSDNPGLILVSQPLNGENYNSWNRSMMIALSVKNKLGFINGDFPRPADDDPLL 81
+NPF+LH SDNPG+ LVSQ L G+NY SW+R+M +AL KNKLGF++ P + DPL
Sbjct: 173 ANPFYLHPSDNPGISLVSQVLTGDNYRSWSRAMRMALIAKNKLGFVDASILVPDELDPLF 352
Query: 82 QSWIRNDHVVMSWILNCVSKDIVS 105
W RN+++V SWILN VSKD+ +
Sbjct: 353 HPWQRNNNIVASWILNSVSKDLAA 424
>AU088980
Length = 360
Score = 100 bits (250), Expect = 1e-21
Identities = 48/112 (42%), Positives = 68/112 (59%)
Frame = +2
Query: 673 NSVVERRHQQLLNVARSLLFQSHMPLVFWGECISTATHLINLIPTPNLHNKSPSTLLYQQ 732
NS+VER+H+ +LNV R+L+F S++P W + A +LIN +P+P L + P L
Sbjct: 2 NSIVERKHRHILNVTRALMFHSYLPKNLWTFAVKHAAYLINXLPSPLLKGQCPYQFLNND 181
Query: 733 DPSYDHLRVFGCLCFSSTLPSTRHKFSPRAVPCVLVGYKQGYKGYKLYNLTT 784
P+ L+VFG LC+SSTL K PRA CV +G+K G GY + +L T
Sbjct: 182 SPTLLDLKVFGTLCYSSTLTHNXQKLDPRARKCVFLGFKTGTXGYIVMDLPT 337
>AV424544
Length = 276
Score = 91.3 bits (225), Expect = 1e-18
Identities = 48/91 (52%), Positives = 63/91 (68%)
Frame = +3
Query: 1078 AKFSSVLTQHGFQHSYHDYSLFTKGSGDTFVVLLVYVNDIIVSGPNATEIDSVKQLLKSA 1137
AK SS L G+ S HD+SLFTK +F V+LVYV+D+I++G + EI VK L
Sbjct: 3 AKLSSYLHILGYIQSAHDHSLFTKFRDASFTVILVYVDDLILAGNDLNEIQCVKNKLDIQ 182
Query: 1138 FKLKDLGKLKFFLGLEIAYSATGISLSQRAY 1168
F++KDLG LK+FLGLE+A S+ G+ LSQR Y
Sbjct: 183 FRIKDLGTLKYFLGLEVARSSCGLFLSQRKY 275
>BP063694
Length = 511
Score = 89.7 bits (221), Expect = 3e-18
Identities = 60/186 (32%), Positives = 89/186 (47%), Gaps = 2/186 (1%)
Frame = -2
Query: 451 FFHKTFVIQENKLKTI-GRGDTHNGLYYLHASSNNVFSASTSPLSVLNSLCNQSVFPSHC 509
F +FVIQ K + GR GLY L+ S + + S SPL
Sbjct: 507 FLDDSFVIQNRKTGAVLGRXRCDQGLYVLNQDSQALLTTS-SPLP--------------- 376
Query: 510 NKSTCTAALWHARLGHPSYNRLSLLSSTIHCKIPSSINENVCPV-CPLAKQKRLPFVSEN 568
+ LWH+RLGH +++ + L + S + + +C C +AK KRL F N
Sbjct: 375 ---RASFELWHSRLGHVNFDIIKQLHKHGCLDVSSILPKPICCTSCQMAKSKRLVFHDNN 205
Query: 569 HFANHSFDLIHCDVWGPFHVPTHVGHRFFLTIVDDHSRFTWTFLIKHKSEAPLAIMAFFK 628
A+ DLIHCD+ GP V + G +F+ VDD SRFTW + +K KS+ ++ F
Sbjct: 204 KRASAVLDLIHCDLRGPSPVASIDGFSYFVIFVDDFSRFTWFYPLKRKSDFSDVLLRFKV 25
Query: 629 MVQTQF 634
++ +F
Sbjct: 24 FMENRF 7
>BP033602
Length = 533
Score = 85.9 bits (211), Expect = 4e-17
Identities = 50/142 (35%), Positives = 66/142 (46%)
Frame = +3
Query: 464 KTIGRGDTHNGLYYLHASSNNVFSASTSPLSVLNSLCNQSVFPSHCNKSTCTAALWHARL 523
K IG +GLYY + N LC S C LWH RL
Sbjct: 156 KMIGSAKMKDGLYYFEDTFRN---------KAAQGLCGMS-----CTSVRDQIMLWHNRL 293
Query: 524 GHPSYNRLSLLSSTIHCKIPSSINENVCPVCPLAKQKRLPFVSENHFANHSFDLIHCDVW 583
GHP++ L L + + S E C C LAK +R P+ S+ + A+ F LIH DVW
Sbjct: 294 GHPNFQYLRHLFPDLFKNVNCSSLE--CESCVLAKNQRAPYYSQPYHASRPFYLIHSDVW 467
Query: 584 GPFHVPTHVGHRFFLTIVDDHS 605
GP + T G R+F+T +DDH+
Sbjct: 468 GPSKITTQFGKRWFVTFIDDHT 533
>BP054557
Length = 538
Score = 83.2 bits (204), Expect = 3e-16
Identities = 62/191 (32%), Positives = 88/191 (45%), Gaps = 4/191 (2%)
Frame = -2
Query: 371 ILDSGASCHVCFHLSSFESYHSVRSHTISLPDNTKARVTHIGTVKLGNSLILHNVCYVPT 430
+LD+GA+ HVC +L F++ V +S+P+ K +V L V YVP+
Sbjct: 537 LLDTGATHHVCHNLDVFQALRQVHPVLLSMPNGQKEIAHMADSVYFSEKFFLAXVLYVPS 358
Query: 431 FTVNLLSVSALLENPKYSIHFFHKTFVIQEN-KLKTIGRGDTHNGLYYLHASSNNVFSAS 489
F NL+SVSAL+++ + F + ++QE LKTIG + GLY A + A
Sbjct: 357 FNFNLISVSALVKSLNCRLVIFDECCLLQERPTLKTIGAAEERGGLY---AVIDPAVKAK 187
Query: 490 TSPLSVLNSLCNQSVFPSHCNKSTCTAALWHARLGHPSYNRLSLLSST---IHCKIPSSI 546
P N SH N LWH RLGH S +L++L I CK +S
Sbjct: 186 HPPAE-----GNIKTQVSHFNFCQFDCNLWHLRLGHTSSKKLAILQKNFPFITCKQITS- 25
Query: 547 NENVCPVCPLA 557
C C +A
Sbjct: 24 ---PCDTCHMA 1
>AV766088
Length = 501
Score = 81.6 bits (200), Expect = 8e-16
Identities = 41/102 (40%), Positives = 56/102 (54%)
Frame = -3
Query: 517 ALWHARLGHPSYNRLSLLSSTIHCKIPSSINENVCPVCPLAKQKRLPFVSENHFANHSFD 576
+LWH+RLGHPS + L L S VC C K RLPFVS N+ FD
Sbjct: 310 SLWHSRLGHPSSSALRYLRSNKFISYELLNYSPVCESCVFGKHVRLPFVSSNNVTVMPFD 131
Query: 577 LIHCDVWGPFHVPTHVGHRFFLTIVDDHSRFTWTFLIKHKSE 618
++H D+W V + GHRF++ +DD + F WTF + +KS+
Sbjct: 130 ILHSDLW-TSPVLSSAGHRFYVLFLDDFTDFLWTFPLSNKSQ 8
>AV410378
Length = 358
Score = 80.9 bits (198), Expect = 1e-15
Identities = 45/123 (36%), Positives = 65/123 (52%), Gaps = 12/123 (9%)
Frame = +1
Query: 849 PLVSEIVAPSPDAIVPPLAVRRSTRVRHPPGYLADYDCPQQTTP------------HPLS 896
PL SE ++ + V R S RVR PP YL DY C + +PLS
Sbjct: 1 PLPSETLSNPEEGNVQ----RISNRVRRPPSYLQDYHCTLAASTTVSKVPSSAGISYPLS 168
Query: 897 TYYSYDKLTPSYKVYSVKVASHYEPTYFHQAIQYPEWQQAMRTELAAMEANQTWDVVSLP 956
SY KLTPSY+ + + + + EPT + +A+++ W++AM E+ A+E N TW +V P
Sbjct: 169 KVISYHKLTPSYRAFIMNITTVSEPTRYSEAVKHECWRKAMDQEIEALERNHTWILVDKP 348
Query: 957 PGK 959
P K
Sbjct: 349 PDK 357
>TC12832 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-related Pol
polyprotein from transposon TNT 1-94 [Contains: Protease
; Reverse transcriptase ; Endonuclease] , partial (9%)
Length = 747
Score = 73.2 bits (178), Expect = 3e-13
Identities = 49/147 (33%), Positives = 71/147 (47%), Gaps = 9/147 (6%)
Frame = +2
Query: 1080 FSSVLTQHGFQHSYHDYSLFTKGSGDT-FVVLLVYVNDIIVSGPNATEIDSVKQLLKSAF 1138
F S + G+ D+ + K D F++LL+YV+D++V GPN + +K L F
Sbjct: 2 FDSFIMSLGYNRLSSDHCTYHKRFDDNDFIILLLYVDDMLVVGPNKDRVQELKAQLAREF 181
Query: 1139 KLKDLGKLKFFLGLEIAYSATG--ISLSQRAYALSLLHDTGFTDCRPTSLPMDPNLKLSS 1196
+KDLG LG++I I LSQ+ Y +L DC P S P+ N KLSS
Sbjct: 182 DMKDLGPANKILGMQIHRDRKDRRIWLSQKNYLQKVLRRFNMQDCNPISTPLPVNYKLSS 361
Query: 1197 DTGP----ELADSSQ--YRRLIGRLLY 1217
P E + S+ Y +G L+Y
Sbjct: 362 SMIPSSEAERMEMSRVPYASAVGSLMY 442
>TC13132 similar to UP|Q9FJA1 (Q9FJA1) Similarity to retroelement pol
polyprotein, partial (3%)
Length = 591
Score = 68.9 bits (167), Expect = 5e-12
Identities = 38/115 (33%), Positives = 60/115 (52%)
Frame = +1
Query: 258 RDRPLCSYCGKLGHSVDRCFKKHGYPPGLNFKNKSSAVHHVDSSEVSGSSVPQDPPITSS 317
+DRP+CS+CG GH+ +CFK HGYPPG+ K K S H + SG+ ++ +
Sbjct: 25 KDRPICSHCGIPGHTAAKCFKLHGYPPGMKPKYKPST--HAVADPSSGTFQNAVTTLSPA 198
Query: 318 QYQQLLSLLTAQLATSPMPSSSTSEPLQIPSPTDLKGFVFSASSDFSHKTSVWIL 372
QL+ LLT QL T ++ + + +P + K +D+ T +WI+
Sbjct: 199 PCNQLIQLLTNQLTT------TSPDSVDVPESSGTKSGQPPFENDWEG*TQIWIV 345
Score = 37.0 bits (84), Expect = 0.022
Identities = 29/93 (31%), Positives = 41/93 (43%), Gaps = 5/93 (5%)
Frame = +2
Query: 463 LKTIGRGDTHNGLYY-----LHASSNNVFSASTSPLSVLNSLCNQSVFPSHCNKSTCTAA 517
L+ IG+ +GLYY L + F + TS +NS SV S +
Sbjct: 305 LRMIGKAKPKSGLYYRDTRTLDETCKLQFLSFTS---AVNSTKASSVVSSFTPCTKVAEC 475
Query: 518 LWHARLGHPSYNRLSLLSSTIHCKIPSSINENV 550
LWH RLGH S +L + C IP S++ +
Sbjct: 476 LWHYRLGHLSLQYHDMLPTI--CNIPVSVSNEI 568
>BP078157
Length = 395
Score = 67.0 bits (162), Expect = 2e-11
Identities = 44/117 (37%), Positives = 62/117 (52%), Gaps = 3/117 (2%)
Frame = -2
Query: 453 HKTFVIQENKLKTIGRGDTHNGLYYLHASSNNVFSASTSPLSVLNSLCNQ--SVFPSHCN 510
H + +LK IGRG+ HN LY A S VF A+ SP ++S+ + VF H
Sbjct: 349 HLLIQLDPVRLKMIGRGNLHNKLYLFEAQSQ-VFEANGSPQVSVSSVFSSILCVFCFH*F 173
Query: 511 KSTCTAA-LWHARLGHPSYNRLSLLSSTIHCKIPSSINENVCPVCPLAKQKRLPFVS 566
K LWH+RLGH S L ++S+ + + + + C VCPL+K +RL FVS
Sbjct: 172 KHKIKLPRLWHSRLGHLSDKVLKVVSNLVPFTVLPDFHSHNCNVCPLSKMRRLSFVS 2
>BP035283
Length = 476
Score = 66.2 bits (160), Expect = 3e-11
Identities = 40/99 (40%), Positives = 55/99 (55%), Gaps = 5/99 (5%)
Frame = -2
Query: 463 LKTIGRGDTHNGLYYLHASSNNVFSASTSPL---SVLNSLCNQSVFPSHCNKSTCTAALW 519
L+ IG ++ NGLYYL + + S S SV+ S+ SVFPS + C LW
Sbjct: 283 LRMIGNANSQNGLYYLDTRTLDKMSHLNSVFPFTSVVTSIDTSSVFPSCTKVAKC---LW 113
Query: 520 HARLGHPSYNRLSLLSSTIHCKIPSSINENV--CPVCPL 556
H RLGH S+ +L +T CKIP S++ + CP+CPL
Sbjct: 112 HYRLGHLSFQYHDMLPTT--CKIPVSLSHEIKSCPICPL 2
>AV411594
Length = 244
Score = 58.5 bits (140), Expect(2) = 5e-11
Identities = 32/65 (49%), Positives = 40/65 (61%)
Frame = +2
Query: 1149 FLGLEIAYSATGISLSQRAYALSLLHDTGFTDCRPTSLPMDPNLKLSSDTGPELADSSQY 1208
FL IA S GI LS+R YAL LL DT C+P P+DP++KL+S G L+D + Y
Sbjct: 50 FLRT*IAKSKKGILLSRRKYALQLLDDTRNMGCKPPPFPLDPSIKLNSTDGELLSDVTLY 229
Query: 1209 RRLIG 1213
R IG
Sbjct: 230 IRFIG 244
Score = 26.9 bits (58), Expect(2) = 5e-11
Identities = 12/20 (60%), Positives = 15/20 (75%)
Frame = +3
Query: 1134 LKSAFKLKDLGKLKFFLGLE 1153
L +FKLK L +K+FLGLE
Sbjct: 6 LAKSFKLKVLDDMKYFLGLE 65
>TC11361
Length = 549
Score = 63.5 bits (153), Expect = 2e-10
Identities = 30/88 (34%), Positives = 48/88 (54%)
Frame = +3
Query: 252 KSGKKDRDRPLCSYCGKLGHSVDRCFKKHGYPPGLNFKNKSSAVHHVDSSEVSGSSVPQD 311
KS +DRP C++CG LGH+ D+C++ G+PP ++V+ V + S
Sbjct: 9 KSKSHKKDRPTCTHCGILGHTKDKCYRLIGFPPHYKKSKSVASVNAVTTGTEDSPSANSF 188
Query: 312 PPITSSQYQQLLSLLTAQLATSPMPSSS 339
P T+ Q Q LL +L QL+ + +P S+
Sbjct: 189 VPFTAQQCQVLLQMLQTQLSHAQLPDSA 272
>AV779929
Length = 484
Score = 63.2 bits (152), Expect = 3e-10
Identities = 39/102 (38%), Positives = 55/102 (53%), Gaps = 1/102 (0%)
Frame = -3
Query: 832 PQPESVPV-PSADHIPATPLVSEIVAPSPDAIVPPLAVRRSTRVRHPPGYLADYDCPQQT 890
P P+S+ V P D L SE + S + + P +RRSTR P +L DY T
Sbjct: 377 PPPDSLEVTPGFD*HSPHDLESESSSFSHNHVQP---LRRSTRAPSLPAHLQDYT---MT 216
Query: 891 TPHPLSTYYSYDKLTPSYKVYSVKVASHYEPTYFHQAIQYPE 932
+P+ Y SYDKL+ YK + VA YEP ++HQ ++YP+
Sbjct: 215 VHYPIQPYVSYDKLSQPYKAFVSPVAHVYEPQFYHQPVRYPD 90
>AV427921
Length = 284
Score = 61.2 bits (147), Expect = 1e-09
Identities = 29/79 (36%), Positives = 45/79 (56%)
Frame = +1
Query: 670 PQQNSVVERRHQQLLNVARSLLFQSHMPLVFWGECISTATHLINLIPTPNLHNKSPSTLL 729
PQQN V ER+++ +LN+ RSLL S +P F E + + H++N PT + N P
Sbjct: 25 PQQNGVSERKNRTILNMVRSLLTMSGLPKSFLPEAVMWSLHILNRSPTLVVQNMMPEEAW 204
Query: 730 YQQDPSYDHLRVFGCLCFS 748
+ P+ DH R+ CL ++
Sbjct: 205 SGRQPAVDHFRISRCLAYA 261
>BI418295
Length = 523
Score = 55.8 bits (133), Expect = 5e-08
Identities = 23/89 (25%), Positives = 52/89 (57%)
Frame = +2
Query: 75 ADDDPLLQSWIRNDHVVMSWILNCVSKDIVSSVICCRSAKEIWQDLQDRFHQPNGTRIYQ 134
A ++P +WI+ D +V +W+L +S ++ +VI C + ++W+++ D F + +
Sbjct: 119 ATENPAYTTWIKQDSMVFTWLLTTLSPFVLPTVINCERSSQVWREILDFFENQCRAQSAK 298
Query: 135 LKKDLLNLQQESLTVTQFYTKHKAIWDEL 163
L+ +L N+ + S ++T++ + K I + L
Sbjct: 299 LRSELKNITKGSKSITEYLRRIKTIVNTL 385
>BP058111
Length = 570
Score = 50.1 bits (118), Expect = 2e-06
Identities = 30/76 (39%), Positives = 39/76 (50%), Gaps = 3/76 (3%)
Frame = -1
Query: 507 SHCNKSTCTAALWHARLGHPSYNRLSLLSST---IHCKIPSSINENVCPVCPLAKQKRLP 563
SH N LWH RLGH S +L++L I CK +S C C +AKQK+L
Sbjct: 219 SHFNFCQFDCNLWHLRLGHTSSKKLAILQKNFPFITCKKITS----PCDTCHMAKQKKLS 52
Query: 564 FVSENHFANHSFDLIH 579
F + ++ FDLIH
Sbjct: 51 FPNSVTLSSEIFDLIH 4
Database: LJGI
Posted date: Jul 30, 2004 11:16 AM
Number of letters in database: 14,692,800
Number of sequences in database: 28,460
Lambda K H
0.323 0.136 0.424
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,852,483
Number of Sequences: 28460
Number of extensions: 511190
Number of successful extensions: 3310
Number of sequences better than 10.0: 111
Number of HSP's better than 10.0 without gapping: 3148
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 3270
length of query: 1427
length of database: 4,897,600
effective HSP length: 102
effective length of query: 1325
effective length of database: 1,994,680
effective search space: 2642951000
effective search space used: 2642951000
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 61 (28.1 bits)
Lotus: description of TM0110a.16