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= AC149496.11 - phase: 0 /pseudo
(1173 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
TC12832 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 122 3e-28
BP066094 95 2e-21
BP063694 92 6e-19
BP075943 76 4e-14
AV427921 76 4e-14
AU088980 72 4e-13
BP033602 63 2e-10
AV766088 55 6e-08
TC9039 54 1e-07
AV424544 53 2e-07
BP052632 52 7e-07
BP054557 40 0.002
BP065763 40 0.003
BP066067 38 0.008
BP058111 37 0.014
TC18909 29 0.017
BP063902 37 0.024
AV410378 35 0.090
BP030995 32 0.45
BP049306 32 0.77
>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 = 122 bits (306), Expect = 3e-28
Identities = 64/149 (42%), Positives = 92/149 (60%), Gaps = 1/149 (0%)
Frame = +2
Query: 962 FDETVQQYGFIKNEDEPCVY-KKVSGSIVSFLILYVDDILLIGNDIPTLQEIKTWLRKCF 1020
FD + G+ + + C Y K+ + L+LYVDD+L++G + +QE+K L + F
Sbjct: 2 FDSFIMSLGYNRLSSDHCTYHKRFDDNDFIILLLYVDDMLVVGPNKDRVQELKAQLAREF 181
Query: 1021 SMKDLGEASYILGIRIYRDRSQRLLGLSQGRYIDKVLRRFNMHESKKGFIPMSSGLNLSK 1080
MKDLG A+ ILG++I+RDR R + LSQ Y+ KVLRRFNM + P+ LS
Sbjct: 182 DMKDLGPANKILGMQIHRDRKDRRIWLSQKNYLQKVLRRFNMQDCNPISTPLPVNYKLSS 361
Query: 1081 TQSPSTDDERDRMRDIPYASAIGSIMYAM 1109
+ PS++ ER M +PYASA+GS+MYAM
Sbjct: 362 SMIPSSEAERMEMSRVPYASAVGSLMYAM 448
>BP066094
Length = 532
Score = 95.1 bits (235), Expect(2) = 2e-21
Identities = 51/147 (34%), Positives = 90/147 (60%), Gaps = 1/147 (0%)
Frame = +2
Query: 890 KSIRILLAIAAYHDYEIWQMDVKTAFLNGNLLEDVYMTQPEGFGDPKATKKVCKLQRSIY 949
++IR+L++ + H+ + QM+VK+AFLNG + E+VY+ QP G D K + + KL++S+Y
Sbjct: 95 EAIRLLISFSVNHNIILHQMNVKSAFLNGYISEEVYVHQPPGXEDEKNSDHIFKLKKSLY 274
Query: 950 GLKQASRSWNLRFDETVQQYGFIKNEDEPCVYKKVSGSIVSFLILYVDDILLIGNDIPTL 1009
GLKQA R+W R + + ++ + + ++ K + + +YVDDI + G+ P+L
Sbjct: 275 GLKQAPRAWYERLSSFLLENEXVRGKVDTTLFCKTYKDDILIVQIYVDDI-IFGSANPSL 451
Query: 1010 -QEIKTWLRKCFSMKDLGEASYILGIR 1035
+E ++ F M+ +GE Y LGI+
Sbjct: 452 CKEFSEMMQAEFEMRMMGELKYFLGIQ 532
Score = 25.8 bits (55), Expect(2) = 2e-21
Identities = 11/20 (55%), Positives = 14/20 (70%)
Frame = +3
Query: 871 FKQIHGVDYDETFSPVAMIK 890
+ Q G+DY ETF+PVA K
Sbjct: 39 YSQQ*GIDYTETFAPVARRK 98
>BP063694
Length = 511
Score = 91.7 bits (226), Expect = 6e-19
Identities = 59/169 (34%), Positives = 80/169 (46%), Gaps = 1/169 (0%)
Frame = -2
Query: 387 FTIKNKCCSVYLDNILYANANLSNGLYVLDLDMPIYNINAKRLKPNELNPTYLWHCRLGH 446
F I+N+ L GLYVL+ D + L LWH RLGH
Sbjct: 492 FVIQNRKTGAVL-----GRXRCDQGLYVLNQDSQALLTTSSPLPRASFE---LWHSRLGH 337
Query: 447 INENRISKLHKDGFLD-SFDFESYETCRSCLLGKMTKAPFTGQGERASDLLGLIHTDVCG 505
+N + I +LHK G LD S C SC + K + F +RAS +L LIH D+ G
Sbjct: 336 VNFDIIKQLHKHGCLDVSSILPKPICCTSCQMAKSKRLVFHDNNKRASAVLDLIHCDLRG 157
Query: 506 PLNITARGGFHYFITLTDDFSRFGYVYLMKHKSESFTFFKEFQNEVENQ 554
P + + GF YF+ DDFSRF + Y +K KS+ F+ +EN+
Sbjct: 156 PSPVASIDGFSYFVIFVDDFSRFTWFYPLKRKSDFSDVLLRFKVFMENR 10
>BP075943
Length = 547
Score = 75.9 bits (185), Expect = 4e-14
Identities = 61/174 (35%), Positives = 95/174 (54%), Gaps = 3/174 (1%)
Frame = -3
Query: 985 SGSIVSFLILYVDDILLIGNDIPTLQEIKTWLRKCFSMKDLGEASYILGIRIYRDRSQRL 1044
SGS + L+LYVDD+LL GND+ +Q +K+ L F +KDLGEA Y LG+ I R S
Sbjct: 539 SGSFTA-LLLYVDDVLLAGNDMHEIQLVKSSLHDQFRIKDLGEAKYFLGLEIARSTSG-- 369
Query: 1045 LGLSQGRYIDKVLRRFNMHESKKGFIP--MSSGLNLSKTQSPSTDDERDRMRDI-PYASA 1101
+ L+Q +Y +++ GF P S G N S+T +T + DI Y
Sbjct: 368 IVLNQRKYALQLI----SDSGHFGFQPRFYSHGTN-SQTLGTNTGTP---LTDIGSYRRI 213
Query: 1102 IGSIMYAMICTRPDVSYALSATSRYQSNPGNEYWIAVKNILKYLRRTKDTFLIY 1155
+G ++Y + TRPD+++A++ S++ S P + + + LKYL + + L Y
Sbjct: 212 VGRLLY-LNTTRPDITFAVNQLSQFLSAPTDIHEQQLTGFLKYL*GSPGSGLFY 54
>AV427921
Length = 284
Score = 75.9 bits (185), Expect = 4e-14
Identities = 40/85 (47%), Positives = 56/85 (65%), Gaps = 1/85 (1%)
Frame = +1
Query: 587 QLTPPGTPQWNGVSERRNRTLLDMVRSMMSHAELPNFLWGYALLTAAYTLNRVPSKAVEK 646
Q T TPQ NGVSER+NRT+L+MVRS+++ + LP A++ + + LNR P+ V+
Sbjct: 4 Q*TAAYTPQQNGVSERKNRTILNMVRSLLTMSGLPKSFLPEAVMWSLHILNRSPTLVVQN 183
Query: 647 -TPYEIWNGRKPNVGHFKIWGCEAY 670
P E W+GR+P V HF+I C AY
Sbjct: 184 MMPEEAWSGRQPAVDHFRISRCLAY 258
>AU088980
Length = 360
Score = 72.4 bits (176), Expect = 4e-13
Identities = 38/115 (33%), Positives = 63/115 (54%), Gaps = 3/115 (2%)
Frame = +2
Query: 597 NGVSERRNRTLLDMVRSMMSHAELPNFLWGYALLTAAYTLNRVPSKAVE-KTPYEIWNGR 655
N + ER++R +L++ R++M H+ LP LW +A+ AAY +N +PS ++ + PY+ N
Sbjct: 2 NSIVERKHRHILNVTRALMFHSYLPKNLWTFAVKHAAYLINXLPSPLLKGQCPYQFLNND 181
Query: 656 KPNVGHFKIWGCEAYIKRLM--STKLEQKSEKCFFVGYPKETRGYYFYKPPEGTI 708
P + K++G Y L KL+ ++ KC F+G+ T GY P I
Sbjct: 182 SPTLLDLKVFGTLCYSSTLTHNXQKLDPRARKCVFLGFKTGTXGYIVMDLPTTXI 346
>BP033602
Length = 533
Score = 63.2 bits (152), Expect = 2e-10
Identities = 53/168 (31%), Positives = 79/168 (46%), Gaps = 4/168 (2%)
Frame = +3
Query: 361 LENCYYVPAISRNIISISCLDKAGFEFTIKNKCCSVYLDNILYANANLSNGLYVLDLDMP 420
L++C++V II++S I++ CC + +A + +GLY +
Sbjct: 63 LKHCFWVFPEDSVIINLSF---------IQS*CCYSGT*QKMIGSAKMKDGLYYFE--DT 209
Query: 421 IYNINAKRLK----PNELNPTYLWHCRLGHINENRISKLHKDGFLDSFDFESYETCRSCL 476
N A+ L + + LWH RLGH N + L D F + + S E C SC+
Sbjct: 210 FRNKAAQGLCGMSCTSVRDQIMLWHNRLGHPNFQYLRHLFPDLF-KNVNCSSLE-CESCV 383
Query: 477 LGKMTKAPFTGQGERASDLLGLIHTDVCGPLNITARGGFHYFITLTDD 524
L K +AP+ Q AS LIH+DV GP IT + G +F+T DD
Sbjct: 384 LAKNQRAPYYSQPYHASRPFYLIHSDVWGPSKITTQFGKRWFVTFIDD 527
>AV766088
Length = 501
Score = 55.1 bits (131), Expect = 6e-08
Identities = 28/104 (26%), Positives = 53/104 (50%), Gaps = 1/104 (0%)
Frame = -3
Query: 439 LWHCRLGHINENRISKLHKDGFLDSFDFESYE-TCRSCLLGKMTKAPFTGQGERASDLLG 497
LWH RLGH + + + L + F+ S++ +Y C SC+ GK + PF
Sbjct: 307 LWHSRLGHPSSSALRYLRSNKFI-SYELLNYSPVCESCVFGKHVRLPFVSSNNVTVMPFD 131
Query: 498 LIHTDVCGPLNITARGGFHYFITLTDDFSRFGYVYLMKHKSESF 541
++H+D+ + + G +++ DDF+ F + + + +KS+ F
Sbjct: 130 ILHSDL-WTSPVLSSAGHRFYVLFLDDFTDFLWTFPLSNKSQVF 2
>TC9039
Length = 1218
Score = 54.3 bits (129), Expect = 1e-07
Identities = 41/178 (23%), Positives = 73/178 (40%)
Frame = +2
Query: 97 AFDMIEHLKTLYEEQARHERFDVSKALFSTKLSEGGPVGPHVLKMIGYSENLARLGFVLE 156
A D + ++ + + + E + + L S K G + +++ M + L L L
Sbjct: 395 AKDFLAEIEKRFAKSDKAETSTLLQNLISMKYQGKGNIREYIMGMSNIASKLKALKLELS 574
Query: 157 QELVVDLVLQSLPESLNGFVHNFLMNDMDKTLPQLAAMLRTAEKNMKGKGKVAAILMVNN 216
+L++ LVL SLP + F ++ +L +L + E+ +K + K +A
Sbjct: 575 DDLLIHLVLLSLPAQFSQFKISYNCPKEKWSLNELISFCVQEEERLKQERKESA------ 736
Query: 217 GKFKKHHKKPNKSKGNGKGKIVAKPSTKALKPTGGVAKDDKCFYCNNAGHWK*NYPKY 274
H +K KG K + K +DD C++CN +GH K KY
Sbjct: 737 -----HFVSTSKDKGKRKKTVEPKNEAADAPAPKKQKEDDTCYFCNVSGHMKKKCTKY 895
Score = 50.1 bits (118), Expect = 2e-06
Identities = 31/100 (31%), Positives = 54/100 (54%), Gaps = 2/100 (2%)
Frame = +3
Query: 318 QGLRKSRALAKGEVDLRVGNGAKVAALAVGTYVLTLPSGLLLNLENCYYVPAISRNIISI 377
+G R L E + VG+G V A+G + L L +G L+L++ + VP+ RN+IS+
Sbjct: 915 KGCLSYRKLNDVERYIYVGDGKTVEVEAIGHFRLLLCTGFYLDLKDTFVVPSFRRNLISV 1094
Query: 378 SCLDKAGFEFTIKNKCCSVYLDNILYANANL--SNGLYVL 415
S LDK+G+ + N + ++ + +L + LY+L
Sbjct: 1095 SNLDKSGYSCSFGNSKAELSFNSNIVGTGSLIGYDNLYLL 1214
>AV424544
Length = 276
Score = 53.1 bits (126), Expect = 2e-07
Identities = 29/83 (34%), Positives = 49/83 (58%)
Frame = +3
Query: 970 GFIKNEDEPCVYKKVSGSIVSFLILYVDDILLIGNDIPTLQEIKTWLRKCFSMKDLGEAS 1029
G+I++ + ++ K + + +++YVDD++L GND+ +Q +K L F +KDLG
Sbjct: 33 GYIQSAHDHSLFTKFRDASFTVILVYVDDLILAGNDLNEIQCVKNKLDIQFRIKDLGTLK 212
Query: 1030 YILGIRIYRDRSQRLLGLSQGRY 1052
Y LG+ + RS L LSQ +Y
Sbjct: 213 YFLGLEV--ARSSCGLFLSQRKY 275
>BP052632
Length = 489
Score = 51.6 bits (122), Expect = 7e-07
Identities = 39/136 (28%), Positives = 61/136 (44%), Gaps = 13/136 (9%)
Frame = -3
Query: 646 KTPYEIWNGRKPNVGHFKIWGCEAYIKRLMST--KLEQKSEKCFFVGYPKETRGYYFYKP 703
KTPYE+W GR+P V +F +GC+ +I K + K +K +GY ++ Y +
Sbjct: 487 KTPYELWRGRRPTVSYFHPFGCK*FILNTNDNIGKFDNKFDKRILLGYSSNSKAYIVFNS 308
Query: 704 PEGTIVVAKTGVF----------LEKDFVSRRISGSKVDLKEIQDPQSTEIPVEEQGQDT 753
+ + F LEKDF++ +DL + Q E+P E GQ +
Sbjct: 307 RTQVVEESINVKFDD*SIEATYRLEKDFLN-------LDLSD----QDEEVPTNE-GQPS 164
Query: 754 QTVMTE-NPAPVTQEP 768
+T E + P T P
Sbjct: 163 ETSHEEPSTQPQTTNP 116
>BP054557
Length = 538
Score = 40.0 bits (92), Expect = 0.002
Identities = 46/167 (27%), Positives = 75/167 (44%), Gaps = 12/167 (7%)
Frame = -2
Query: 304 VLDTGCGSHICTDVQGLRKSRALAKGEVDLRVGNGAK-VAALAVGTYVLTLPSGLLLNLE 362
+LDTG H+C ++ + R + V L + NG K +A +A Y L
Sbjct: 537 LLDTGATHHVCHNLDVFQALRQVHP--VLLSMPNGQKEIAHMADSVYFSEK-----FFLA 379
Query: 363 NCYYVPAISRNIISISCLDKA-GFEFTIKNKCCSVYLDNIL--YANANLSNGLY-VLDLD 418
YVP+ + N+IS+S L K+ I ++CC + L A GLY V+D
Sbjct: 378 XVLYVPSFNFNLISVSALVKSLNCRLVIFDECCLLQERPTLKTIGAAEERGGLYAVIDPA 199
Query: 419 MPIYNINAK---RLKPNELN----PTYLWHCRLGHINENRISKLHKD 458
+ + A+ + + + N LWH RLGH + +++ L K+
Sbjct: 198 VKAKHPPAEGNIKTQVSHFNFCQFDCNLWHLRLGHTSSKKLAILQKN 58
>BP065763
Length = 537
Score = 39.7 bits (91), Expect = 0.003
Identities = 29/85 (34%), Positives = 40/85 (46%), Gaps = 4/85 (4%)
Frame = -2
Query: 333 LRVGNGAKVAALAVGTYVLTLPSGLLLNLENCYYVPAISRNIISISCLDKAG----FEFT 388
L +GN K +GTY L L +G L+LE C YV +RN++S K G
Sbjct: 266 LYMGNQMKARIEGIGTYRLILDTGHQLDLEKCLYVRGCARNLVSSR---KVGSFRVLILX 96
Query: 389 IKNKCCSVYLDNILYANANLSNGLY 413
I + S+Y Y + L +GLY
Sbjct: 95 IGHGGFSLYKLAYYYGSGTLLDGLY 21
Score = 29.3 bits (64), Expect = 3.8
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Frame = -1
Query: 232 NGKGKIVAKPSTKALKPT-------GGVAKDDKCFYCNNAGHWK*NYPK 273
+G AKP K K G + K+ C++C AGH+K PK
Sbjct: 480 DGASXSKAKPGRKEQKKDQALKVKEGRIHKEHVCYFCKKAGHFKKYCPK 334
>BP066067
Length = 505
Score = 38.1 bits (87), Expect = 0.008
Identities = 20/78 (25%), Positives = 42/78 (53%), Gaps = 1/78 (1%)
Frame = -2
Query: 299 TSTSWVLDTGCGSHICTDVQGLRKSRAL-AKGEVDLRVGNGAKVAALAVGTYVLTLPSGL 357
T+ SW D+G H+ D Q L +S + + +V + G G + ++ ++ L S
Sbjct: 309 TTHSW*ADSGASHHVTNDPQHLMESITMPGQEQVYVCSGQGLPILSIGFTSFSSPLISNT 130
Query: 358 LLNLENCYYVPAISRNII 375
+L++ +++P I++NI+
Sbjct: 129 KFSLKDFFHLPTITKNIV 76
>BP058111
Length = 570
Score = 37.4 bits (85), Expect = 0.014
Identities = 21/64 (32%), Positives = 32/64 (49%), Gaps = 1/64 (1%)
Frame = -1
Query: 439 LWHCRLGHINENRISKLHKD-GFLDSFDFESYETCRSCLLGKMTKAPFTGQGERASDLLG 497
LWH RLGH + +++ L K+ F+ S C +C + K K F +S++
Sbjct: 186 LWHLRLGHTSSKKLAILQKNFPFITCKKITS--PCDTCHMAKQKKLSFPNSVTLSSEIFD 13
Query: 498 LIHT 501
LIHT
Sbjct: 12 LIHT 1
>TC18909
Length = 621
Score = 28.9 bits (63), Expect(2) = 0.017
Identities = 12/17 (70%), Positives = 14/17 (81%)
Frame = +1
Query: 857 GKVSTYKARLVAKGFKQ 873
G ++ YKARLVAKGF Q
Sbjct: 1 GSINKYKARLVAKGFHQ 51
Score = 26.9 bits (58), Expect(2) = 0.017
Identities = 12/22 (54%), Positives = 16/22 (72%)
Frame = +2
Query: 878 DYDETFSPVAMIKSIRILLAIA 899
DY ET SPV ++RILL++A
Sbjct: 62 DYTETVSPVVKPVTVRILLSLA 127
>BP063902
Length = 494
Score = 36.6 bits (83), Expect = 0.024
Identities = 16/48 (33%), Positives = 25/48 (51%)
Frame = -3
Query: 439 LWHCRLGHINENRISKLHKDGFLDSFDFESYETCRSCLLGKMTKAPFT 486
+WH RLGH + ++ L + + S C SC+LGK + PF+
Sbjct: 183 VWHHRLGHPASSALNHLRNNKLIFCEPSRSSSVCDSCVLGKHVRLPFS 40
>AV410378
Length = 358
Score = 34.7 bits (78), Expect = 0.090
Identities = 15/40 (37%), Positives = 24/40 (59%)
Frame = +1
Query: 798 EPVTYTEAITGPEFEKWLEAMKSEMDSMYTNQVWNLIDAP 837
EP Y+EA+ + E W +AM E++++ N W L+D P
Sbjct: 238 EPTRYSEAV---KHECWRKAMDQEIEALERNHTWILVDKP 348
>BP030995
Length = 458
Score = 32.3 bits (72), Expect = 0.45
Identities = 33/130 (25%), Positives = 54/130 (41%), Gaps = 31/130 (23%)
Frame = -3
Query: 359 LNLENCYYVPAISRNIISISCLDKAG---FEF-------------------TIKNKCCSV 396
L L N +VP + +N+ S+S K FEF T++N C+
Sbjct: 426 LVLNNLLHVPGVCKNLSSVSXFCKQNNVFFEFHSDSCLVKSQETEETLLQGTLRNGLCA- 250
Query: 397 YLDNILY-----ANANLSNGLYVLDLDMPIYNINAKRLKPNELNP----TYLWHCRLGHI 447
DN+L+ + + LSN +L P ++ N+ + LWH RLGH
Sbjct: 249 -FDNLLHKVNLHSASTLSNSA-LLSSSSPASALSVSVFSSNKCAQADIDSRLWHSRLGHA 76
Query: 448 NENRISKLHK 457
++ +S + K
Sbjct: 75 SQKIVSHVLK 46
>BP049306
Length = 506
Score = 31.6 bits (70), Expect = 0.77
Identities = 14/47 (29%), Positives = 20/47 (41%)
Frame = +3
Query: 801 TYTEAITGPEFEKWLEAMKSEMDSMYTNQVWNLIDAPEGINPIGCKW 847
+Y+ A E WL +D + T Q W L+D G + C W
Sbjct: 255 SYSLAAANDELSAWLSIKAGLVDPLNTLQDWKLVDKALGNDAAHCNW 395
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
0.320 0.137 0.410
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,420,046
Number of Sequences: 28460
Number of extensions: 260916
Number of successful extensions: 1280
Number of sequences better than 10.0: 57
Number of HSP's better than 10.0 without gapping: 1262
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): 1272
length of query: 1173
length of database: 4,897,600
effective HSP length: 100
effective length of query: 1073
effective length of database: 2,051,600
effective search space: 2201366800
effective search space used: 2201366800
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 (21.8 bits)
S2: 60 (27.7 bits)
Medicago: description of AC149496.11