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= AC144727.8 + phase: 0 /pseudo
(770 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
AV780009 162 2e-40
BP043850 134 5e-32
BP075943 114 8e-26
BP066094 101 1e-24
AU088980 75 4e-14
TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%) 74 7e-14
TC12832 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 74 9e-14
AV424544 71 7e-13
TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, p... 67 8e-12
BP084332 64 1e-10
TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%) 57 9e-09
AV427921 55 4e-08
BP057233 52 3e-07
AV410378 50 1e-06
AV769206 49 2e-06
AV766665 48 5e-06
TC19389 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 47 1e-05
TC10484 similar to UP|Q850H7 (Q850H7) Gag-pol polyprotein (Fragm... 30 8e-05
TC10186 weakly similar to UP|Q9FH39 (Q9FH39) Copia-type polyprot... 36 2e-04
AV411594 41 6e-04
>AV780009
Length = 529
Score = 162 bits (409), Expect = 2e-40
Identities = 84/165 (50%), Positives = 107/165 (63%)
Frame = -1
Query: 588 AVRRIIRYLKGSSHCGLFFSIGNYPKLSAYSDANWAGCPDTRHSVTSWCMFLRSSLISWK 647
A R++RY+KG+ GLFFS + KL AYSD++WAGCPDTR SVT + +FL +SLISW+
Sbjct: 526 AATRVLRYVKGAPAQGLFFSADSPLKLQAYSDSDWAGCPDTRRSVTGYSIFLGTSLISWR 347
Query: 648 SKKQARVSKSSTESEYRAMYAACSEIIWLRGFLAELGFP*TEPTSLYADNTSAI*FVANP 707
+KKQ VS+SS+E+EYRA+ A E+ WL L P L+ DN SA+ NP
Sbjct: 346 TKKQTTVSRSSSEAEYRALAATVCEVQWLSYLFQFLKLNVPLPVPLFCDNQSALHIAHNP 167
Query: 708 VFHERTKLIEVDCHSIRDAYDE*LISLPHVSTQLQIADILTKAVP 752
FHERTK IE+DCH +R LI L +ST Q+ADI TK P
Sbjct: 166 TFHERTKHIELDCHVVRAKLQAGLIHLLPISTHHQLADIFTKPCP 32
>BP043850
Length = 515
Score = 134 bits (337), Expect = 5e-32
Identities = 65/97 (67%), Positives = 80/97 (82%)
Frame = -1
Query: 671 SEIIWLRGFLAELGFP*TEPTSLYADNTSAI*FVANPVFHERTKLIEVDCHSIRDAYDE* 730
SEIIWLRG L+ELGF ++PT L+ADNTSAI ANPV+HE T+ IEVDCHS+R+AYD
Sbjct: 515 SEIIWLRGLLSELGFLQSQPTPLHADNTSAIQIAANPVYHEWTRHIEVDCHSVREAYDRR 336
Query: 731 LISLPHVSTQLQIADILTKAVPRPRHQFLVGKLMIFD 767
+I+LPHVST +QIADILTK++ R RH FLV KLM+ +
Sbjct: 335 VITLPHVSTSVQIADILTKSLTRQRHNFLVSKLMLVE 225
>BP075943
Length = 547
Score = 114 bits (284), Expect = 8e-26
Identities = 68/163 (41%), Positives = 93/163 (56%), Gaps = 1/163 (0%)
Frame = -3
Query: 445 TSTGIVLLLLYVDDMVITGSDNAFIQRLKEQLHASFHMKDLGNLHYFLGLEVHSTSKGIF 504
+S LLLYVDD+++ G+D IQ +K LH F +KDLG YFLGLE+ ++ GI
Sbjct: 542 SSGSFTALLLYVDDVLLAGNDMHEIQLVKSSLHDQFRIKDLGEAKYFLGLEIARSTSGIV 363
Query: 505 LHQHKYATYLISMAGLQSTNPVDTPLEVNVK-YHRDDGDILPDPLLYRQLVGSLN*LTIT 563
L+Q KYA LIS +G P N + + G L D YR++VG L L T
Sbjct: 362 LNQRKYALQLISDSGHFGFQPRFYSHGTNSQTLGTNTGTPLTDIGSYRRIVGRLLYLNTT 183
Query: 564 RPDISFVVQQVSQFMHSPRHLHLAAVRRIIRYLKGSSHCGLFF 606
RPDI+F V Q+SQF+ +P +H + ++YL GS GLF+
Sbjct: 182 RPDITFAVNQLSQFLSAPTDIHEQQLTGFLKYL*GSPGSGLFY 54
>BP066094
Length = 532
Score = 101 bits (251), Expect(2) = 1e-24
Identities = 50/130 (38%), Positives = 82/130 (62%), Gaps = 2/130 (1%)
Frame = +2
Query: 368 VHQMDVKNIFLHGDLAEDIYMTPPQGLFS--SSKGVCKLKRSLYGLKQAPRAWYEKFCSS 425
+HQM+VK+ FL+G ++E++Y+ P G +S + KLK+SLYGLKQAPRAWYE+ S
Sbjct: 143 LHQMNVKSAFLNGYISEEVYVHQPPGXEDEKNSDHIFKLKKSLYGLKQAPRAWYERLSSF 322
Query: 426 LLGFCFSHSQYNSSLFIHRTSTGIVLLLLYVDDMVITGSDNAFIQRLKEQLHASFHMKDL 485
LL + +++LF I+++ +YVDD++ ++ + + E + A F M+ +
Sbjct: 323 LLENEXVRGKVDTTLFCKTYKDDILIVQIYVDDIIFGSANPSLCKEFSEMMQAEFEMRMM 502
Query: 486 GNLHYFLGLE 495
G L YFLG++
Sbjct: 503 GELKYFLGIQ 532
Score = 29.6 bits (65), Expect(2) = 1e-24
Identities = 13/19 (68%), Positives = 15/19 (78%)
Frame = +3
Query: 346 RNKQEYGIDYDETFAPVAK 364
R Q+ GIDY ETFAPVA+
Sbjct: 36 RYSQQ*GIDYTETFAPVAR 92
>AU088980
Length = 360
Score = 75.1 bits (183), Expect = 4e-14
Identities = 35/110 (31%), Positives = 60/110 (53%)
Frame = +2
Query: 56 NGLAERKNRHLLDVTRSLLF*AFIPPRFWVEALATTVFLINRLPSIVIEFDSPFFHLFKF 115
N + ERK+RH+L+VTR+L+F +++P W A+ +LIN LPS +++ P+ L
Sbjct: 2 NSIVERKHRHILNVTRALMFHSYLPKNLWTFAVKHAAYLINXLPSPLLKGQCPYQFLNND 181
Query: 116 QLDYSDLHTFGCVCFVHLPPFEKHKLGVQSVQCAFMGYSNSHKGFVCYDV 165
DL FG +C+ KL ++ +C F+G+ G++ D+
Sbjct: 182 SPTLLDLKVFGTLCYSSTLTHNXQKLDPRARKCVFLGFKTGTXGYIVMDL 331
>TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%)
Length = 553
Score = 74.3 bits (181), Expect = 7e-14
Identities = 40/84 (47%), Positives = 52/84 (61%), Gaps = 1/84 (1%)
Frame = +1
Query: 675 WLRGFLAELGFP*TEPTSLYADNTSAI*FVANPVFHERTKLIEVDCHSIRDAYDE*LISL 734
WL L +L P +P +Y DN SA ANPVFHERTK IE+DCH +R+ + LI L
Sbjct: 4 WLTYLLQDLKVPFEQPALVYCDNNSARHIAANPVFHERTKHIEIDCHIVRERIQKGLIHL 183
Query: 735 PHVSTQLQIADILTKAV-PRPRHQ 757
+S+ +ADI TKA+ P+ HQ
Sbjct: 184 LPISSSEPLADIYTKALSPQNFHQ 255
>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 = 73.9 bits (180), Expect = 9e-14
Identities = 41/108 (37%), Positives = 59/108 (53%), Gaps = 2/108 (1%)
Frame = +2
Query: 430 CFSHSQYNSSLFIHRTSTGIVLLLLYVDDMVITGSDNAFIQRLKEQLHASFHMKDLGNLH 489
C H +++ + FI +LLLYVDDM++ G + +Q LK QL F MKDLG +
Sbjct: 53 CTYHKRFDDNDFI--------ILLLYVDDMLVVGPNKDRVQELKAQLAREFDMKDLGPAN 208
Query: 490 YFLGLEVHSTSKG--IFLHQHKYATYLISMAGLQSTNPVDTPLEVNVK 535
LG+++H K I+L Q Y ++ +Q NP+ TPL VN K
Sbjct: 209 KILGMQIHRDRKDRRIWLSQKNYLQKVLRRFNMQDCNPISTPLPVNYK 352
>AV424544
Length = 276
Score = 70.9 bits (172), Expect = 7e-13
Identities = 35/80 (43%), Positives = 50/80 (61%)
Frame = +3
Query: 431 FSHSQYNSSLFIHRTSTGIVLLLLYVDDMVITGSDNAFIQRLKEQLHASFHMKDLGNLHY 490
+ S ++ SLF ++L+YVDD+++ G+D IQ +K +L F +KDLG L Y
Sbjct: 36 YIQSAHDHSLFTKFRDASFTVILVYVDDLILAGNDLNEIQCVKNKLDIQFRIKDLGTLKY 215
Query: 491 FLGLEVHSTSKGIFLHQHKY 510
FLGLEV +S G+FL Q KY
Sbjct: 216 FLGLEVARSSCGLFLSQRKY 275
>TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, partial (4%)
Length = 670
Score = 67.4 bits (163), Expect = 8e-12
Identities = 38/96 (39%), Positives = 52/96 (53%)
Frame = +1
Query: 672 EIIWLRGFLAELGFP*TEPTSLYADNTSAI*FVANPVFHERTKLIEVDCHSIRDAYDE*L 731
E+ WL L +L P P+ LY D+ SA N VFHERTK +++DCH +R+ L
Sbjct: 4 EL*WLTYILQDLRVPFISPSLLYCDSQSARHIATNAVFHERTKHLDIDCHVVREKLQAKL 183
Query: 732 ISLPHVSTQLQIADILTKAVPRPRHQFLVGKLMIFD 767
L +S+ Q ADILTK + LV KL + +
Sbjct: 184 FHLLPISSVDQTADILTKPLESGPFSHLVSKLGVLN 291
>BP084332
Length = 368
Score = 63.5 bits (153), Expect = 1e-10
Identities = 37/113 (32%), Positives = 60/113 (52%)
Frame = +2
Query: 651 QARVSKSSTESEYRAMYAACSEIIWLRGFLAELGFP*TEPTSLYADNTSAI*FVANPVFH 710
Q+ ++ S+ E+EY + ++++W++ L + + +Y DNT+AI NP+ H
Sbjct: 32 QSTIALSTAEAEYISAAICSTQMLWMKHQLEDYQILESN-IPIYCDNTAAISLSKNPILH 208
Query: 711 ERTKLIEVDCHSIRDAYDE*LISLPHVSTQLQIADILTKAVPRPRHQFLVGKL 763
R K IEV H IRD + ++ L V T Q ADI TK + R F++ L
Sbjct: 209 SRAKHIEVKYHFIRDYVQKGVLLLKFVDTDHQWADIFTKPLAEDRFNFILKNL 367
>TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%)
Length = 550
Score = 57.4 bits (137), Expect = 9e-09
Identities = 31/80 (38%), Positives = 45/80 (55%)
Frame = +3
Query: 672 EIIWLRGFLAELGFP*TEPTSLYADNTSAI*FVANPVFHERTKLIEVDCHSIRDAYDE*L 731
E +WL LA+L +Y DN SA+ AN VFH+RT+ IE+DCH + +
Sbjct: 21 EALWLTYALADLRIASLLLVVIYCDNRSALHLAANSVFHKRTENIEIDCHIV*VKVLFGI 200
Query: 732 ISLPHVSTQLQIADILTKAV 751
+ L HV + Q+AD+ TK +
Sbjct: 201 LHLLHVPSSDQVADVFTKTI 260
>AV427921
Length = 284
Score = 55.1 bits (131), Expect = 4e-08
Identities = 29/83 (34%), Positives = 48/83 (56%)
Frame = +1
Query: 52 TPQQNGLAERKNRHLLDVTRSLLF*AFIPPRFWVEALATTVFLINRLPSIVIEFDSPFFH 111
TPQQNG++ERKNR +L++ RSLL + +P F EA+ ++ ++NR P++V++ P
Sbjct: 22 TPQQNGVSERKNRTILNMVRSLLTMSGLPKSFLPEAVMWSLHILNRSPTLVVQNMMPEEA 201
Query: 112 LFKFQLDYSDLHTFGCVCFVHLP 134
Q C+ + H+P
Sbjct: 202 WSGRQPAVDHFRISRCLAYAHVP 270
>BP057233
Length = 473
Score = 52.4 bits (124), Expect = 3e-07
Identities = 31/71 (43%), Positives = 40/71 (55%)
Frame = -2
Query: 693 LYADNTSAI*FVANPVFHERTKLIEVDCHSIRDAYDE*LISLPHVSTQLQIADILTKAVP 752
L+ DN SA +NPV H R+K IE+D H IRD + + + +V T QIAD LTK +
Sbjct: 445 LWCDNLSAKALASNPVLHARSKHIEIDVHYIRDQVLQNEVVVAYVPTTDQIADCLTKPLS 266
Query: 753 RPRHQFLVGKL 763
R L KL
Sbjct: 265 HTRFSQLRDKL 233
>AV410378
Length = 358
Score = 50.4 bits (119), Expect = 1e-06
Identities = 22/45 (48%), Positives = 33/45 (72%)
Frame = +1
Query: 271 SLSSISIPTCYSQVVKDVRWIKAMNEEIQALQENLTWDIVSCPPD 315
+++++S PT YS+ VK W KAM++EI+AL+ N TW +V PPD
Sbjct: 220 NITTVSEPTRYSEAVKHECWRKAMDQEIEALERNHTWILVDKPPD 354
>AV769206
Length = 536
Score = 49.3 bits (116), Expect = 2e-06
Identities = 23/59 (38%), Positives = 36/59 (60%)
Frame = -3
Query: 133 LPPFEKHKLGVQSVQCAFMGYSNSHKGFVCYDVSNHSFRVSRNVTFFYNQFMLHSISPD 191
L P+ KL + S +C F+GYS +HKG+ C D S + +S++V F ++F S+ PD
Sbjct: 531 LRPYNSTKLSLHSKECVFIGYSINHKGYKCLDQSGRIY-ISKDVLFHEHRFPYPSLFPD 358
>AV766665
Length = 601
Score = 48.1 bits (113), Expect = 5e-06
Identities = 26/75 (34%), Positives = 42/75 (55%)
Frame = +3
Query: 591 RIIRYLKGSSHCGLFFSIGNYPKLSAYSDANWAGCPDTRHSVTSWCMFLRSSLISWKSKK 650
RI YLK +S G F + ++ A++ G R S + MFL +L++W+SK+
Sbjct: 372 RIF*YLKANSRRGPLFQKEGKSSMDGFTYADYLGSIVDRLSTMGYYMFLSGNLVTWRSKQ 551
Query: 651 QARVSKSSTESEYRA 665
Q +++SS E+E RA
Sbjct: 552 QNIIARSSGEAELRA 596
>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 = 47.0 bits (110), Expect = 1e-05
Identities = 31/113 (27%), Positives = 57/113 (50%), Gaps = 1/113 (0%)
Frame = +3
Query: 644 ISWKSKKQARVSKSSTESEYRAMYAACSEIIWLRGFLAELGFP*TEPTSLYADNTSAI*F 703
++W S+ Q V+ S+ E+E+ A AC E++W++ FL F + P T A+
Sbjct: 27 VAWPSRLQKCVALSTAEAEFIAATEACHELLWMKNFLQNAWFH-SHPILCCIVITKALFT 203
Query: 704 VAN-PVFHERTKLIEVDCHSIRDAYDE*LISLPHVSTQLQIADILTKAVPRPR 755
+A +F + + +RD + L+ L + T AD++TK++PR +
Sbjct: 204 LARILLFIQDPSTLMFVIIGLRDVLNSKLLELEKIHTDDDGADMMTKSLPREK 362
>TC10484 similar to UP|Q850H7 (Q850H7) Gag-pol polyprotein (Fragment),
partial (20%)
Length = 479
Score = 29.6 bits (65), Expect(3) = 8e-05
Identities = 12/13 (92%), Positives = 12/13 (92%)
Frame = +2
Query: 710 HERTKLIEVDCHS 722
HERTK IEVDCHS
Sbjct: 113 HERTKHIEVDCHS 151
Score = 26.6 bits (57), Expect(3) = 8e-05
Identities = 11/33 (33%), Positives = 18/33 (54%)
Frame = +3
Query: 675 WLRGFLAELGFP*TEPTSLYADNTSAI*FVANP 707
W+ L+E+G P L+ DN +A+ +NP
Sbjct: 3 WVGQILSEMGIERISPMPLWCDNQAALHISSNP 101
Score = 25.8 bits (55), Expect(3) = 8e-05
Identities = 12/33 (36%), Positives = 19/33 (57%)
Frame = +1
Query: 731 LISLPHVSTQLQIADILTKAVPRPRHQFLVGKL 763
LIS +V T + D+ TKA+ R+ F+ +L
Sbjct: 178 LISTSYVRTATHLPDVFTKALNGVRNDFICNQL 276
>TC10186 weakly similar to UP|Q9FH39 (Q9FH39) Copia-type polyprotein,
partial (4%)
Length = 528
Score = 35.8 bits (81), Expect(2) = 2e-04
Identities = 18/40 (45%), Positives = 23/40 (57%)
Frame = +3
Query: 716 IEVDCHSIRDAYDE*LISLPHVSTQLQIADILTKAVPRPR 755
IE H +RD + ISL H T LQ+ADI+TK + R
Sbjct: 72 IETKYHFLRDQVTKGKISLKHCGTDLQVADIMTKGLKTER 191
Score = 26.2 bits (56), Expect(2) = 2e-04
Identities = 13/22 (59%), Positives = 14/22 (63%)
Frame = +2
Query: 696 DNTSAI*FVANPVFHERTKLIE 717
DN SAI NPV H R+K IE
Sbjct: 5 DNKSAIDLAKNPVSHGRSKHIE 70
>AV411594
Length = 244
Score = 41.2 bits (95), Expect = 6e-04
Identities = 21/65 (32%), Positives = 33/65 (50%)
Frame = +2
Query: 491 FLGLEVHSTSKGIFLHQHKYATYLISMAGLQSTNPVDTPLEVNVKYHRDDGDILPDPLLY 550
FL + + KGI L + KYA L+ P PL+ ++K + DG++L D LY
Sbjct: 50 FLRT*IAKSKKGILLSRRKYALQLLDDTRNMGCKPPPFPLDPSIKLNSTDGELLSDVTLY 229
Query: 551 RQLVG 555
+ +G
Sbjct: 230 IRFIG 244
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
0.326 0.139 0.433
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,340,261
Number of Sequences: 28460
Number of extensions: 264725
Number of successful extensions: 3485
Number of sequences better than 10.0: 130
Number of HSP's better than 10.0 without gapping: 2696
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): 3192
length of query: 770
length of database: 4,897,600
effective HSP length: 97
effective length of query: 673
effective length of database: 2,136,980
effective search space: 1438187540
effective search space used: 1438187540
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 59 (27.3 bits)
Medicago: description of AC144727.8