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= TM0359.2
(453 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
BP066094 271 6e-78
BP084332 157 4e-39
AV780009 112 1e-25
BP075943 75 2e-14
TC19389 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 44 3e-12
AV766665 62 3e-10
TC12832 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 59 2e-09
TC17418 similar to UP|Q94AX2 (Q94AX2) AT5g39790/MKM21_80, partia... 54 4e-08
TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%) 52 2e-07
AV424544 52 2e-07
BP057233 48 4e-06
BP043850 47 6e-06
TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%) 42 2e-04
TC10186 weakly similar to UP|Q9FH39 (Q9FH39) Copia-type polyprot... 35 9e-04
TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, p... 39 0.001
TC19474 weakly similar to UP|Q9FJA1 (Q9FJA1) Similarity to retro... 30 0.005
BP073752 37 0.007
TC18909 36 0.015
AV408509 34 0.044
BP052124 33 0.097
>BP066094
Length = 532
Score = 271 bits (692), Expect(3) = 6e-78
Identities = 133/149 (89%), Positives = 141/149 (94%)
Frame = +2
Query: 72 ARLEAIILLISFSLNHNIILHQMDVKSAFLNGYISKEVYVHQPPGFEDEKKPDHVFKLKK 131
++ EAI LLISFS+NHNIILHQM+VKSAFLNGYIS+EVYVHQPPG EDEK DH+FKLKK
Sbjct: 86 SKTEAIRLLISFSVNHNIILHQMNVKSAFLNGYISEEVYVHQPPGXEDEKNSDHIFKLKK 265
Query: 132 SLYGLKQAPRAWYERLSSFLLENEFVRGKVDTTLFCKTYKDDILIVKIYVDDIIFGSANQ 191
SLYGLKQAPRAWYERLSSFLLENE VRGKVDTTLFCKTYKDDILIV+IYVDDIIFGSAN
Sbjct: 266 SLYGLKQAPRAWYERLSSFLLENEXVRGKVDTTLFCKTYKDDILIVQIYVDDIIFGSANP 445
Query: 192 SLCKEFSKMMQAEFEMSMMGELKYFLGIQ 220
SLCKEFS+MMQAEFEM MMGELKYFLGIQ
Sbjct: 446 SLCKEFSEMMQAEFEMRMMGELKYFLGIQ 532
Score = 37.4 bits (85), Expect(3) = 6e-78
Identities = 17/18 (94%), Positives = 17/18 (94%)
Frame = +3
Query: 56 YSQQEGIDYTETFAPVAR 73
YSQQ GIDYTETFAPVAR
Sbjct: 39 YSQQ*GIDYTETFAPVAR 92
Score = 21.2 bits (43), Expect(3) = 6e-78
Identities = 9/10 (90%), Positives = 9/10 (90%)
Frame = +1
Query: 46 RNKERLVAQG 55
RNK RLVAQG
Sbjct: 10 RNKARLVAQG 39
>BP084332
Length = 368
Score = 157 bits (396), Expect(2) = 4e-39
Identities = 77/78 (98%), Positives = 77/78 (98%)
Frame = +2
Query: 376 QSTIALSTAEAEYISAAICSTQMLWMKHQLEDYQILESNIPIYCDNTAAISLSKNPILHS 435
QSTIALSTAEAEYISAAICSTQMLWMKHQLEDYQILESNIPIYCDNTAAISLSKNPILHS
Sbjct: 32 QSTIALSTAEAEYISAAICSTQMLWMKHQLEDYQILESNIPIYCDNTAAISLSKNPILHS 211
Query: 436 RAKHIEVKYHFIRGYVQK 453
RAKHIEVKYHFIR YVQK
Sbjct: 212 RAKHIEVKYHFIRDYVQK 265
Score = 21.6 bits (44), Expect(2) = 4e-39
Identities = 8/8 (100%), Positives = 8/8 (100%)
Frame = +1
Query: 361 CQFLGSNL 368
CQFLGSNL
Sbjct: 4 CQFLGSNL 27
>AV780009
Length = 529
Score = 112 bits (280), Expect = 1e-25
Identities = 57/146 (39%), Positives = 90/146 (61%), Gaps = 6/146 (4%)
Frame = -1
Query: 313 AVKRILRYLKGTINLGLMYKKTSEYKLSGYCDADYAGDRTERKSTFGNCQFLGSNLVSWA 372
A R+LRY+KG GL + S KL Y D+D+AG R+S G FLG++L+SW
Sbjct: 526 AATRVLRYVKGAPAQGLFFSADSPLKLQAYSDSDWAGCPDTRRSVTGYSIFLGTSLISWR 347
Query: 373 SKRQSTIALSTAEAEY--ISAAICSTQMLWMKHQLEDYQILESN----IPIYCDNTAAIS 426
+K+Q+T++ S++EAEY ++A +C Q W+ + +Q L+ N +P++CDN +A+
Sbjct: 346 TKKQTTVSRSSSEAEYRALAATVCEVQ--WLSYL---FQFLKLNVPLPVPLFCDNQSALH 182
Query: 427 LSKNPILHSRAKHIEVKYHFIRGYVQ 452
++ NP H R KHIE+ H +R +Q
Sbjct: 181 IAHNPTFHERTKHIELDCHVVRAKLQ 104
>BP075943
Length = 547
Score = 75.1 bits (183), Expect = 2e-14
Identities = 45/159 (28%), Positives = 78/159 (48%), Gaps = 2/159 (1%)
Frame = -3
Query: 179 IYVDDIIFGSANQSLCKEFSKMMQAEFEMSMMGELKYFLGIQVDQTPEGTYIHQSKYTKE 238
+YVDD++ + + + +F + +GE KYFLG+++ ++ G ++Q KY +
Sbjct: 515 LYVDDVLLAGNDMHEIQLVKSSLHDQFRIKDLGEAKYFLGLEIARSTSGIVLNQRKYALQ 336
Query: 239 LLKKFNMLESTVAKTPMHPTCILEKEDTSGKVCQKL--YRGMIGSLLYLTASRPDILFSV 296
L+ + H T +G + YR ++G LLYL +RPDI F+V
Sbjct: 335 LISDSGHF-GFQPRFYSHGTNSQTLGTNTGTPLTDIGSYRRIVGRLLYLNTTRPDITFAV 159
Query: 297 HLCARFQSDPRETHLTAVKRILRYLKGTINLGLMYKKTS 335
+ ++F S P + H + L+YL G+ GL Y +S
Sbjct: 158 NQLSQFLSAPTDIHEQQLTGFLKYL*GSPGSGLFYPASS 42
>TC19389 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-related Pol
polyprotein from transposon TNT 1-94 [Contains: Protease
; Reverse transcriptase ; Endonuclease] , partial (6%)
Length = 498
Score = 44.3 bits (103), Expect(2) = 3e-12
Identities = 17/30 (56%), Positives = 23/30 (76%)
Frame = +2
Query: 417 IYCDNTAAISLSKNPILHSRAKHIEVKYHF 446
+YCDN AI L +N HSR+KHI+V+YH+
Sbjct: 173 LYCDNQGAIYLGQNSTFHSRSKHIDVRYHW 262
Score = 43.5 bits (101), Expect(2) = 3e-12
Identities = 19/39 (48%), Positives = 29/39 (73%)
Frame = +3
Query: 369 VSWASKRQSTIALSTAEAEYISAAICSTQMLWMKHQLED 407
V+W S+ Q +ALSTAEAE+I+A ++LWMK+ L++
Sbjct: 27 VAWPSRLQKCVALSTAEAEFIAATEACHELLWMKNFLQN 143
>AV766665
Length = 601
Score = 61.6 bits (148), Expect = 3e-10
Identities = 32/76 (42%), Positives = 43/76 (56%)
Frame = +3
Query: 312 TAVKRILRYLKGTINLGLMYKKTSEYKLSGYCDADYAGDRTERKSTFGNCQFLGSNLVSW 371
T RI YLK G +++K + + G+ ADY G +R ST G FL NLV+W
Sbjct: 360 TFTTRIF*YLKANSRRGPLFQKEGKSSMDGFTYADYLGSIVDRLSTMGYYMFLSGNLVTW 539
Query: 372 ASKRQSTIALSTAEAE 387
SK+Q+ IA S+ EAE
Sbjct: 540 RSKQQNIIARSSGEAE 587
>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 = 58.5 bits (140), Expect = 2e-09
Identities = 37/145 (25%), Positives = 70/145 (47%), Gaps = 9/145 (6%)
Frame = +2
Query: 149 SFLLENEFVRGKVDTTLFCKTYKD-DILIVKIYVDDIIFGSANQSLCKEFSKMMQAEFEM 207
SF++ + R D + K + D D +I+ +YVDD++ N+ +E + EF+M
Sbjct: 8 SFIMSLGYNRLSSDHCTYHKRFDDNDFIILLLYVDDMLVVGPNKDRVQELKAQLAREFDM 187
Query: 208 SMMGELKYFLGIQV--DQTPEGTYIHQSKYTKELLKKFNMLESTVAKTP------MHPTC 259
+G LG+Q+ D+ ++ Q Y +++L++FNM + TP + +
Sbjct: 188 KDLGPANKILGMQIHRDRKDRRIWLSQKNYLQKVLRRFNMQDCNPISTPLPVNYKLSSSM 367
Query: 260 ILEKEDTSGKVCQKLYRGMIGSLLY 284
I E ++ + Y +GSL+Y
Sbjct: 368 IPSSEAERMEMSRVPYASAVGSLMY 442
>TC17418 similar to UP|Q94AX2 (Q94AX2) AT5g39790/MKM21_80, partial (20%)
Length = 739
Score = 54.3 bits (129), Expect = 4e-08
Identities = 36/99 (36%), Positives = 50/99 (50%), Gaps = 1/99 (1%)
Frame = -1
Query: 232 QSKYTKELLKKFNMLESTVAKTPMHPTCILEKEDTSGK-VCQKLYRGMIGSLLYLTASRP 290
Q Y ++LKKF M S T + I GK V Y+ +IGS+ YL R
Sbjct: 739 QKIYVDDILKKFKMTNSKYISTTIGGKEIEAGRRNGGKRVDSTYYKSLIGSVRYLNTVRS 560
Query: 291 DILFSVHLCARFQSDPRETHLTAVKRILRYLKGTINLGL 329
DI+ V L +RF +P + H +R LRY+KGT+ G+
Sbjct: 559 DIVCGVGLRSRFM-EP*DCH*QGAQRSLRYIKGTLKDGI 446
>TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%)
Length = 553
Score = 52.4 bits (124), Expect = 2e-07
Identities = 21/55 (38%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Frame = +1
Query: 400 WMKHQLEDYQI-LESNIPIYCDNTAAISLSKNPILHSRAKHIEVKYHFIRGYVQK 453
W+ + L+D ++ E +YCDN +A ++ NP+ H R KHIE+ H +R +QK
Sbjct: 4 WLTYLLQDLKVPFEQPALVYCDNNSARHIAANPVFHERTKHIEIDCHIVRERIQK 168
>AV424544
Length = 276
Score = 52.0 bits (123), Expect = 2e-07
Identities = 26/90 (28%), Positives = 49/90 (53%)
Frame = +3
Query: 146 RLSSFLLENEFVRGKVDTTLFCKTYKDDILIVKIYVDDIIFGSANQSLCKEFSKMMQAEF 205
+LSS+L +++ D +LF K ++ +YVDD+I + + + + +F
Sbjct: 6 KLSSYLHILGYIQSAHDHSLFTKFRDASFTVILVYVDDLILAGNDLNEIQCVKNKLDIQF 185
Query: 206 EMSMMGELKYFLGIQVDQTPEGTYIHQSKY 235
+ +G LKYFLG++V ++ G ++ Q KY
Sbjct: 186 RIKDLGTLKYFLGLEVARSSCGLFLSQRKY 275
>BP057233
Length = 473
Score = 47.8 bits (112), Expect = 4e-06
Identities = 18/35 (51%), Positives = 28/35 (79%)
Frame = -2
Query: 417 IYCDNTAAISLSKNPILHSRAKHIEVKYHFIRGYV 451
++CDN +A +L+ NP+LH+R+KHIE+ H+IR V
Sbjct: 445 LWCDNLSAKALASNPVLHARSKHIEIDVHYIRDQV 341
>BP043850
Length = 515
Score = 47.0 bits (110), Expect = 6e-06
Identities = 19/54 (35%), Positives = 35/54 (64%), Gaps = 1/54 (1%)
Frame = -1
Query: 396 TQMLWMKHQLEDYQILESN-IPIYCDNTAAISLSKNPILHSRAKHIEVKYHFIR 448
++++W++ L + L+S P++ DNT+AI ++ NP+ H +HIEV H +R
Sbjct: 515 SEIIWLRGLLSELGFLQSQPTPLHADNTSAIQIAANPVYHEWTRHIEVDCHSVR 354
>TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%)
Length = 550
Score = 42.4 bits (98), Expect = 2e-04
Identities = 18/52 (34%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Frame = +3
Query: 397 QMLWMKHQLEDYQILESN-IPIYCDNTAAISLSKNPILHSRAKHIEVKYHFI 447
+ LW+ + L D +I + IYCDN +A+ L+ N + H R ++IE+ H +
Sbjct: 21 EALWLTYALADLRIASLLLVVIYCDNRSALHLAANSVFHKRTENIEIDCHIV 176
>TC10186 weakly similar to UP|Q9FH39 (Q9FH39) Copia-type polyprotein,
partial (4%)
Length = 528
Score = 35.4 bits (80), Expect(2) = 9e-04
Identities = 14/22 (63%), Positives = 18/22 (81%)
Frame = +2
Query: 420 DNTAAISLSKNPILHSRAKHIE 441
DN +AI L+KNP+ H R+KHIE
Sbjct: 5 DNKSAIDLAKNPVSHGRSKHIE 70
Score = 23.5 bits (49), Expect(2) = 9e-04
Identities = 9/15 (60%), Positives = 11/15 (73%)
Frame = +3
Query: 439 HIEVKYHFIRGYVQK 453
+IE KYHF+R V K
Sbjct: 69 NIETKYHFLRDQVTK 113
>TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, partial (4%)
Length = 670
Score = 39.3 bits (90), Expect = 0.001
Identities = 16/54 (29%), Positives = 32/54 (58%), Gaps = 1/54 (1%)
Frame = +1
Query: 400 WMKHQLEDYQI-LESNIPIYCDNTAAISLSKNPILHSRAKHIEVKYHFIRGYVQ 452
W+ + L+D ++ S +YCD+ +A ++ N + H R KH+++ H +R +Q
Sbjct: 13 WLTYILQDLRVPFISPSLLYCDSQSARHIATNAVFHERTKHLDIDCHVVREKLQ 174
>TC19474 weakly similar to UP|Q9FJA1 (Q9FJA1) Similarity to retroelement pol
polyprotein, partial (3%)
Length = 517
Score = 29.6 bits (65), Expect(2) = 0.005
Identities = 13/25 (52%), Positives = 16/25 (64%)
Frame = -1
Query: 364 LGSNLVSWASKRQSTIALSTAEAEY 388
L NL+SW SK +A S AEAE+
Sbjct: 517 LSDNLISWKSKETIIVARSRAEAEF 443
Score = 26.6 bits (57), Expect(2) = 0.005
Identities = 13/28 (46%), Positives = 18/28 (63%)
Frame = -2
Query: 420 DNTAAISLSKNPILHSRAKHIEVKYHFI 447
DN AA+ + K RAKHIE+ +HF+
Sbjct: 354 DNKAALHMPKI*F-SMRAKHIEIDFHFL 274
>BP073752
Length = 403
Score = 37.0 bits (84), Expect = 0.007
Identities = 19/19 (100%), Positives = 19/19 (100%)
Frame = -2
Query: 1 *LVIIKT*SCTTRSKLDLT 19
*LVIIKT*SCTTRSKLDLT
Sbjct: 387 *LVIIKT*SCTTRSKLDLT 331
>TC18909
Length = 621
Score = 35.8 bits (81), Expect = 0.015
Identities = 32/99 (32%), Positives = 44/99 (44%), Gaps = 9/99 (9%)
Frame = +2
Query: 274 LYRGMIGSLLYLTASR--------PDILFSVHLCARFQSDPRETHLTAVKRILRYL-KGT 324
+Y G I +LLYL + P I FSV+ F S+ E H TA K IL K
Sbjct: 260 IYCGPIITLLYLQPAEEDPDPLTSPQISFSVNKVC*FLSESLEEHGTAGKCILNVT*KAL 439
Query: 325 INLGLMYKKTSEYKLSGYCDADYAGDRTERKSTFGNCQF 363
+G + + DAD+A + +R+STF F
Sbjct: 440 *TMGFFIQTN----FPAFSDADWASNVDDRRSTFWEIVF 544
>AV408509
Length = 428
Score = 34.3 bits (77), Expect = 0.044
Identities = 32/110 (29%), Positives = 48/110 (43%), Gaps = 5/110 (4%)
Frame = -3
Query: 181 VDDIIFGSANQSLCKEFSKMMQAEFEMSMMGELKYFLGIQV-----DQTPEGTYIHQSKY 235
V D I+ N L +E K +FE +G +KYF G QV + E + +++
Sbjct: 324 VIDFIY-MTNDELLEE*KKTTMCQFERLDLGLMKYFDGHQVMAYK*IKNMEKCFFYKASM 148
Query: 236 TKELLKKFNMLESTVAKTPMHPTCILEKEDTSGKVCQKLYRGMIGSLLYL 285
+ + F + V K L +ED KV LYR + SL+YL
Sbjct: 147 LQIYYRSFALCRMGVNKN-------LLREDGKEKVDDTLYRKLGQSLIYL 19
>BP052124
Length = 467
Score = 33.1 bits (74), Expect = 0.097
Identities = 13/25 (52%), Positives = 18/25 (72%)
Frame = -2
Query: 418 YCDNTAAISLSKNPILHSRAKHIEV 442
+CDN +A++L+ PI HSR H EV
Sbjct: 454 FCDNNSALTLAPRPI*HSRPVHFEV 380
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 0.137 0.403
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,464,004
Number of Sequences: 28460
Number of extensions: 97541
Number of successful extensions: 426
Number of sequences better than 10.0: 53
Number of HSP's better than 10.0 without gapping: 422
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): 422
length of query: 453
length of database: 4,897,600
effective HSP length: 93
effective length of query: 360
effective length of database: 2,250,820
effective search space: 810295200
effective search space used: 810295200
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (26.6 bits)
Lotus: description of TM0359.2