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= AC144760.12 + phase: 0 /pseudo
(1302 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... 161 5e-40
BP066094 117 1e-28
AV780009 106 2e-23
AV427921 96 4e-20
BP063694 84 1e-16
BP084332 78 1e-14
AU088980 75 7e-14
BP075943 73 3e-13
BP043850 69 4e-12
BP033602 68 1e-11
AV766088 68 1e-11
TC19389 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 67 1e-11
TC8302 65 5e-11
AV424544 65 9e-11
TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, p... 60 2e-09
TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%) 59 6e-09
TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%) 49 5e-06
AV766665 47 2e-05
BP058111 44 2e-04
BP078157 44 2e-04
>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 = 161 bits (408), Expect = 5e-40
Identities = 79/149 (53%), Positives = 109/149 (73%), Gaps = 1/149 (0%)
Frame = +2
Query: 944 FESFMHKEGFQKCNADHCCFFKRYKSS-YIILLLYVDDMLVAGSNIDEIKNLKIQLSKEF 1002
F+SF+ G+ + ++DHC + KR+ + +IILLLYVDDMLV G N D ++ LK QL++EF
Sbjct: 2 FDSFIMSLGYNRLSSDHCTYHKRFDDNDFIILLLYVDDMLVVGPNKDRVQELKAQLAREF 181
Query: 1003 DMKDLGPAKKILGMQITRDKQKGVLQLS*AEYINRVLQRFNMGDAKLVSTPLASHFRLSQ 1062
DMKDLGPA KILGMQI RD++ + LS Y+ +VL+RFNM D +STPL +++LS
Sbjct: 182 DMKDLGPANKILGMQIHRDRKDRRIWLSQKNYLQKVLRRFNMQDCNPISTPLPVNYKLSS 361
Query: 1063 EQSPQTEEEKELMAKIPYASAIGSLMYAM 1091
P +E E+ M+++PYASA+GSLMYAM
Sbjct: 362 SMIPSSEAERMEMSRVPYASAVGSLMYAM 448
>BP066094
Length = 532
Score = 117 bits (294), Expect(2) = 1e-28
Identities = 58/148 (39%), Positives = 87/148 (58%)
Frame = +2
Query: 870 KLNTIRSVLSIVASENLYLEQLDVKTAFLHGDLVEEIYMHQPEGFLEEGKENMVCMLKKS 929
K IR ++S + N+ L Q++VK+AFL+G + EE+Y+HQP G +E + + LKKS
Sbjct: 89 KTEAIRLLISFSVNHNIILHQMNVKSAFLNGYISEEVYVHQPPGXEDEKNSDHIFKLKKS 268
Query: 930 LYGLKQAPRQWYMKFESFMHKEGFQKCNADHCCFFKRYKSSYIILLLYVDDMLVAGSNID 989
LYGLKQAPR WY + SF+ + + D F K YK +I+ +YVDD++ +N
Sbjct: 269 LYGLKQAPRAWYERLSSFLLENEXVRGKVDTTLFCKTYKDDILIVQIYVDDIIFGSANPS 448
Query: 990 EIKNLKIQLSKEFDMKDLGPAKKILGMQ 1017
K + EF+M+ +G K LG+Q
Sbjct: 449 LCKEFSEMMQAEFEMRMMGELKYFLGIQ 532
Score = 27.3 bits (59), Expect(2) = 1e-28
Identities = 11/18 (61%), Positives = 14/18 (77%)
Frame = +3
Query: 853 FRQKEGIDYTEIFAPVVK 870
+ Q+ GIDYTE FAPV +
Sbjct: 39 YSQQ*GIDYTETFAPVAR 92
>AV780009
Length = 529
Score = 106 bits (265), Expect = 2e-23
Identities = 65/178 (36%), Positives = 98/178 (54%), Gaps = 2/178 (1%)
Frame = -1
Query: 1118 EAVKWILRYLRGTTEKCLYFGKGE-IKVEGYVDADFAGEVDHRRSTTGYIFTVGTRSVSW 1176
+A +LRY++G + L+F +K++ Y D+D+AG D RRS TGY +GT +SW
Sbjct: 529 QAATRVLRYVKGAPAQGLFFSADSPLKLQAYSDSDWAGCPDTRRSVTGYSIFLGTSLISW 350
Query: 1177 MSRIQKIVALSTTEVEYVAVTEASKELIWLQGLLTELGF-MQEKSALYSDSQSAIHLAKN 1235
++ Q V+ S++E EY A+ E+ WL L L + L+ D+QSA+H+A N
Sbjct: 349 RTKKQTTVSRSSSEAEYRALAATVCEVQWLSYLFQFLKLNVPLPVPLFCDNQSALHIAHN 170
Query: 1236 SAFHSRTKHIGLRYHFIRSLLEDEVLTLIKIQGSKNPADMLTKVVTIDKLKLCSTLVG 1293
FH RTKHI L H +R+ L+ ++ L+ I AD+ TK LC L+G
Sbjct: 169 PTFHERTKHIELDCHVVRAKLQAGLIHLLPISTHHQLADIFTKPCP----HLCFPLLG 8
>AV427921
Length = 284
Score = 95.9 bits (237), Expect = 4e-20
Identities = 43/91 (47%), Positives = 60/91 (65%)
Frame = +1
Query: 562 TVPGTPQHNGVAERMNRTLTERARSLRVQSGLPKKFWAEAVNTSAYLINRGPSVPLEHKI 621
T TPQ NGV+ER NRT+ RSL SGLPK F EAV S +++NR P++ +++ +
Sbjct: 10 TAAYTPQQNGVSERKNRTILNMVRSLLTMSGLPKSFLPEAVMWSLHILNRSPTLVVQNMM 189
Query: 622 PEEVWSGKEVKLSHLRVFGCVAYVHISDQGR 652
PEE WSG++ + H R+ C+AY H+ DQ R
Sbjct: 190 PEEAWSGRQPAVDHFRISRCLAYAHVPDQKR 282
>BP063694
Length = 511
Score = 84.0 bits (206), Expect = 1e-16
Identities = 46/117 (39%), Positives = 64/117 (54%), Gaps = 1/117 (0%)
Frame = -2
Query: 411 LWHKRLGHMSEKGMKVMHSKGKLPSLRSIEIDIC-EDCILGKQKRVSFQTSGRTPKKEKL 469
LWH RLGH++ +K +H G L + IC C + K KR+ F + + L
Sbjct: 360 LWHSRLGHVNFDIIKQLHKHGCLDVSSILPKPICCTSCQMAKSKRLVFHDNNKRASAV-L 184
Query: 470 ELVHSDVWGPTTVPSIGGKHYFVTFIDDHSRKVWVYFLKHKSEVFEAFKRWKAMVEN 526
+L+H D+ GP+ V SI G YFV F+DD SR W Y LK KS+ + R+K +EN
Sbjct: 183 DLIHCDLRGPSPVASIDGFSYFVIFVDDFSRFTWFYPLKRKSDFSDVLLRFKVFMEN 13
>BP084332
Length = 368
Score = 77.8 bits (190), Expect = 1e-14
Identities = 37/104 (35%), Positives = 60/104 (57%)
Frame = +2
Query: 1181 QKIVALSTTEVEYVAVTEASKELIWLQGLLTELGFMQEKSALYSDSQSAIHLAKNSAFHS 1240
Q +ALST E EY++ S +++W++ L + ++ +Y D+ +AI L+KN HS
Sbjct: 32 QSTIALSTAEAEYISAAICSTQMLWMKHQLEDYQILESNIPIYCDNTAAISLSKNPILHS 211
Query: 1241 RTKHIGLRYHFIRSLLEDEVLTLIKIQGSKNPADMLTKVVTIDK 1284
R KHI ++YHFIR ++ VL L + AD+ TK + D+
Sbjct: 212 RAKHIEVKYHFIRDYVQKGVLLLKFVDTDHQWADIFTKPLAEDR 343
>AU088980
Length = 360
Score = 75.1 bits (183), Expect = 7e-14
Identities = 39/109 (35%), Positives = 57/109 (51%)
Frame = +2
Query: 570 NGVAERMNRTLTERARSLRVQSGLPKKFWAEAVNTSAYLINRGPSVPLEHKIPEEVWSGK 629
N + ER +R + R+L S LPK W AV +AYLIN PS L+ + P + +
Sbjct: 2 NSIVERKHRHILNVTRALMFHSYLPKNLWTFAVKHAAYLINXLPSPLLKGQCPYQFLNND 181
Query: 630 EVKLSHLRVFGCVAYVHISDQGRNKLDPKSKKCIFIGYGEDEFGYRLWD 678
L L+VFG + Y KLDP+++KC+F+G+ GY + D
Sbjct: 182 SPTLLDLKVFGTLCYSSTLTHNXQKLDPRARKCVFLGFKTGTXGYIVMD 328
>BP075943
Length = 547
Score = 72.8 bits (177), Expect = 3e-13
Identities = 56/168 (33%), Positives = 82/168 (48%)
Frame = -3
Query: 970 SYIILLLYVDDMLVAGSNIDEIKNLKIQLSKEFDMKDLGPAKKILGMQITRDKQKGVLQL 1029
S+ LLLYVDD+L+AG+++ EI+ +K L +F +KDLG AK LG++I R VL
Sbjct: 533 SFTALLLYVDDVLLAGNDMHEIQLVKSSLHDQFRIKDLGEAKYFLGLEIARSTSGIVLNQ 354
Query: 1030 S*AEYINRVLQRFNMGDAKLVSTPLASHFRLSQEQSPQTEEEKELMAKIPYASAIGSLMY 1089
LQ + SH SQ T + Y +G L+Y
Sbjct: 353 R-----KYALQLISDSGHFGFQPRFYSHGTNSQTLGTNTGTPLTDIGS--YRRIVGRLLY 195
Query: 1090 AMVCTRPDIGHAVGVVSRFMSNPGKAHWEAVKWILRYLRGTTEKCLYF 1137
+ TRPDI AV +S+F+S P H + + L+YL G+ L++
Sbjct: 194 -LNTTRPDITFAVNQLSQFLSAPTDIHEQQLTGFLKYL*GSPGSGLFY 54
>BP043850
Length = 515
Score = 69.3 bits (168), Expect = 4e-12
Identities = 35/81 (43%), Positives = 54/81 (66%), Gaps = 1/81 (1%)
Frame = -1
Query: 1202 ELIWLQGLLTELGFMQEK-SALYSDSQSAIHLAKNSAFHSRTKHIGLRYHFIRSLLEDEV 1260
E+IWL+GLL+ELGF+Q + + L++D+ SAI +A N +H T+HI + H +R + V
Sbjct: 512 EIIWLRGLLSELGFLQSQPTPLHADNTSAIQIAANPVYHEWTRHIEVDCHSVREAYDRRV 333
Query: 1261 LTLIKIQGSKNPADMLTKVVT 1281
+TL + S AD+LTK +T
Sbjct: 332 ITLPHVSTSVQIADILTKSLT 270
>BP033602
Length = 533
Score = 67.8 bits (164), Expect = 1e-11
Identities = 36/105 (34%), Positives = 57/105 (54%), Gaps = 1/105 (0%)
Frame = +3
Query: 396 GACHLIAVATNENPNLWHKRLGHMSEKGMK-VMHSKGKLPSLRSIEIDICEDCILGKQKR 454
G C + + + LWH RLGH + + ++ + K + S+E CE C+L K +R
Sbjct: 231 GLCGMSCTSVRDQIMLWHNRLGHPNFQYLRHLFPDLFKNVNCSSLE---CESCVLAKNQR 401
Query: 455 VSFQTSGRTPKKEKLELVHSDVWGPTTVPSIGGKHYFVTFIDDHS 499
+ + + L+HSDVWGP+ + + GK +FVTFIDDH+
Sbjct: 402 APYYSQPYHASRP-FYLIHSDVWGPSKITTQFGKRWFVTFIDDHT 533
>AV766088
Length = 501
Score = 67.8 bits (164), Expect = 1e-11
Identities = 36/106 (33%), Positives = 58/106 (53%), Gaps = 1/106 (0%)
Frame = -3
Query: 410 NLWHKRLGHMSEKGMKVMHSKGKLPSLRSIEID-ICEDCILGKQKRVSFQTSGRTPKKEK 468
+LWH RLGH S ++ + S K S + +CE C+ GK R+ F +S
Sbjct: 310 SLWHSRLGHPSSSALRYLRSN-KFISYELLNYSPVCESCVFGKHVRLPFVSSNNVTVMP- 137
Query: 469 LELVHSDVWGPTTVPSIGGKHYFVTFIDDHSRKVWVYFLKHKSEVF 514
+++HSD+W + V S G ++V F+DD + +W + L +KS+VF
Sbjct: 136 FDILHSDLW-TSPVLSSAGHRFYVLFLDDFTDFLWTFPLSNKSQVF 2
>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 = 67.4 bits (163), Expect = 1e-11
Identities = 41/130 (31%), Positives = 67/130 (51%), Gaps = 1/130 (0%)
Frame = +3
Query: 1166 IFTVGTRSVSWMSRIQKIVALSTTEVEYVAVTEASKELIWLQGLLTELGFMQEK-SALYS 1224
+ T +V+W SR+QK VALST E E++A TEA EL+W++ L F
Sbjct: 3 LVTFAGGAVAWPSRLQKCVALSTAEAEFIAATEACHELLWMKNFLQNAWFHSHPILCCIV 182
Query: 1225 DSQSAIHLAKNSAFHSRTKHIGLRYHFIRSLLEDEVLTLIKIQGSKNPADMLTKVVTIDK 1284
+++ LA+ F + +R +L ++L L KI + ADM+TK + +K
Sbjct: 183 ITKALFTLARILLFIQDPSTLMFVIIGLRDVLNSKLLELEKIHTDDDGADMMTKSLPREK 362
Query: 1285 LKLCSTLVGL 1294
L++C + G+
Sbjct: 363 LEVCDMIAGM 392
>TC8302
Length = 494
Score = 65.5 bits (158), Expect = 5e-11
Identities = 41/159 (25%), Positives = 78/159 (48%), Gaps = 3/159 (1%)
Frame = +3
Query: 102 RRLFTLRMAEGMSVAQHINELNIVTTQLSSVGIEFDDEVRALILLSSLPDSWSAIVTAVS 161
+RL+TLRM+E S++ HI+ +N + QLS+ + RA +LL SLPDS+ +V +
Sbjct: 3 KRLYTLRMSESTSMSDHIDHMNTLFAQLSASNFTIGENERAELLLESLPDSYDQLVINIK 182
Query: 162 SSSGSKKMKFDDVRDLVLSEEIRR---RELGESSSSSVLHTESRGRNSTRGNGRGKSKAR 218
+++ + + +++L E+ +R + +SS T +RGR+ +R
Sbjct: 183 NNNIVNHLPLMMLSEVLLEEDSQR*NKEDR*DSSKPMEALTMTRGRSKSR---------- 332
Query: 219 RSKSKNHRSSHNSKSIECWNCGKTGHFKNQCRLPTKNQE 257
+++C++CG+ H K C K+ +
Sbjct: 333 -----------KKINLKCYHCGQR*HLKKDCWFNKKSSD 416
>AV424544
Length = 276
Score = 64.7 bits (156), Expect = 9e-11
Identities = 29/78 (37%), Positives = 53/78 (67%)
Frame = +3
Query: 943 KFESFMHKEGFQKCNADHCCFFKRYKSSYIILLLYVDDMLVAGSNIDEIKNLKIQLSKEF 1002
K S++H G+ + DH F K +S+ ++L+YVDD+++AG++++EI+ +K +L +F
Sbjct: 6 KLSSYLHILGYIQSAHDHSLFTKFRDASFTVILVYVDDLILAGNDLNEIQCVKNKLDIQF 185
Query: 1003 DMKDLGPAKKILGMQITR 1020
+KDLG K LG+++ R
Sbjct: 186 RIKDLGTLKYFLGLEVAR 239
>TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, partial (4%)
Length = 670
Score = 60.1 bits (144), Expect = 2e-09
Identities = 33/78 (42%), Positives = 45/78 (57%), Gaps = 1/78 (1%)
Frame = +1
Query: 1202 ELIWLQGLLTELGF-MQEKSALYSDSQSAIHLAKNSAFHSRTKHIGLRYHFIRSLLEDEV 1260
EL WL +L +L S LY DSQSA H+A N+ FH RTKH+ + H +R L+ ++
Sbjct: 4 EL*WLTYILQDLRVPFISPSLLYCDSQSARHIATNAVFHERTKHLDIDCHVVREKLQAKL 183
Query: 1261 LTLIKIQGSKNPADMLTK 1278
L+ I AD+LTK
Sbjct: 184 FHLLPISSVDQTADILTK 237
>TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%)
Length = 553
Score = 58.5 bits (140), Expect = 6e-09
Identities = 33/92 (35%), Positives = 50/92 (53%), Gaps = 1/92 (1%)
Frame = +1
Query: 1205 WLQGLLTELGFMQEKSAL-YSDSQSAIHLAKNSAFHSRTKHIGLRYHFIRSLLEDEVLTL 1263
WL LL +L E+ AL Y D+ SA H+A N FH RTKHI + H +R ++ ++ L
Sbjct: 4 WLTYLLQDLKVPFEQPALVYCDNNSARHIAANPVFHERTKHIEIDCHIVRERIQKGLIHL 183
Query: 1264 IKIQGSKNPADMLTKVVTIDKLKLCSTLVGLL 1295
+ I S+ AD+ TK ++ +GL+
Sbjct: 184 LPISSSEPLADIYTKALSPQNFHQICAKLGLI 279
>TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%)
Length = 550
Score = 48.9 bits (115), Expect = 5e-06
Identities = 27/81 (33%), Positives = 44/81 (53%), Gaps = 1/81 (1%)
Frame = +3
Query: 1202 ELIWLQGLLTELGFMQEKSA-LYSDSQSAIHLAKNSAFHSRTKHIGLRYHFIRSLLEDEV 1260
E +WL L +L +Y D++SA+HLA NS FH RT++I + H + + +
Sbjct: 21 EALWLTYALADLRIASLLLVVIYCDNRSALHLAANSVFHKRTENIEIDCHIV*VKVLFGI 200
Query: 1261 LTLIKIQGSKNPADMLTKVVT 1281
L L+ + S AD+ TK ++
Sbjct: 201 LHLLHVPSSDQVADVFTKTIS 263
>AV766665
Length = 601
Score = 47.0 bits (110), Expect = 2e-05
Identities = 28/85 (32%), Positives = 44/85 (50%), Gaps = 5/85 (5%)
Frame = +3
Query: 1113 GKAHWEAVKW----ILRYLRGTTEKCLYFGK-GEIKVEGYVDADFAGEVDHRRSTTGYIF 1167
GK W ++K I YL+ + + F K G+ ++G+ AD+ G + R ST GY
Sbjct: 333 GKNRWSSLKTFTTRIF*YLKANSRRGPLFQKEGKSSMDGFTYADYLGSIVDRLSTMGYYM 512
Query: 1168 TVGTRSVSWMSRIQKIVALSTTEVE 1192
+ V+W S+ Q I+A S+ E E
Sbjct: 513 FLSGNLVTWRSKQQNIIARSSGEAE 587
Score = 30.4 bits (67), Expect = 1.9
Identities = 19/69 (27%), Positives = 37/69 (53%), Gaps = 1/69 (1%)
Frame = +1
Query: 940 WYMKFESFMHKEGFQKCNADHCCFFKR-YKSSYIILLLYVDDMLVAGSNIDEIKNLKIQL 998
W+++ H E + + C ++ + SS+ L +YVD M + G + E + L+ +L
Sbjct: 16 WFVRLTEATHAESRWPYSLNKTCPQRQTHTSSH--LCVYVDHMTIVGDDEVEKQILREKL 189
Query: 999 SKEFDMKDL 1007
+ +FD+K L
Sbjct: 190 APQFDLKKL 216
>BP058111
Length = 570
Score = 43.5 bits (101), Expect = 2e-04
Identities = 23/65 (35%), Positives = 35/65 (53%)
Frame = -1
Query: 410 NLWHKRLGHMSEKGMKVMHSKGKLPSLRSIEIDICEDCILGKQKRVSFQTSGRTPKKEKL 469
NLWH RLGH S K + ++ + + I C+ C + KQK++SF S T E
Sbjct: 189 NLWHLRLGHTSSKKLAILQKNFPFITCKKI-TSPCDTCHMAKQKKLSFPNS-VTLSSEIF 16
Query: 470 ELVHS 474
+L+H+
Sbjct: 15 DLIHT 1
>BP078157
Length = 395
Score = 43.5 bits (101), Expect = 2e-04
Identities = 20/49 (40%), Positives = 27/49 (54%)
Frame = -2
Query: 409 PNLWHKRLGHMSEKGMKVMHSKGKLPSLRSIEIDICEDCILGKQKRVSF 457
P LWH RLGH+S+K +KV+ + L C C L K +R+SF
Sbjct: 154 PRLWHSRLGHLSDKVLKVVSNLVPFTVLPDFHSHNCNVCPLSKMRRLSF 8
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
0.317 0.133 0.392
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,053,892
Number of Sequences: 28460
Number of extensions: 302561
Number of successful extensions: 1799
Number of sequences better than 10.0: 91
Number of HSP's better than 10.0 without gapping: 1742
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): 1777
length of query: 1302
length of database: 4,897,600
effective HSP length: 101
effective length of query: 1201
effective length of database: 2,023,140
effective search space: 2429791140
effective search space used: 2429791140
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (28.1 bits)
Medicago: description of AC144760.12