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= AC123574.1 + phase: 0 /pseudo
(527 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
AV780009 186 8e-48
BP075943 137 4e-33
TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%) 86 2e-17
TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, p... 85 3e-17
TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%) 75 2e-14
BP084332 63 1e-10
BP043850 59 1e-09
AV411594 50 4e-09
AV766665 56 1e-08
AV424544 51 4e-07
TC19389 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 42 1e-06
BP084259 50 1e-06
BP057233 49 2e-06
TC17418 similar to UP|Q94AX2 (Q94AX2) AT5g39790/MKM21_80, partia... 48 3e-06
TC10484 similar to UP|Q850H7 (Q850H7) Gag-pol polyprotein (Fragm... 34 1e-05
TC19474 weakly similar to UP|Q9FJA1 (Q9FJA1) Similarity to retro... 37 3e-05
BP052124 41 6e-04
AV779990 34 0.004
TC12832 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 37 0.008
BP066094 30 0.008
>AV780009
Length = 529
Score = 186 bits (472), Expect = 8e-48
Identities = 90/141 (63%), Positives = 109/141 (76%)
Frame = -1
Query: 387 AAMRVLKYLKTSLGKGLFFPRDSALQILGFSDADWAGCLDSRRSISGQCFFLGKSLISWR 446
AA RVL+Y+K + +GLFF DS L++ +SD+DWAGC D+RRS++G FLG SLISWR
Sbjct: 526 AATRVLRYVKGAPAQGLFFSADSPLKLQAYSDSDWAGCPDTRRSVTGYSIFLGTSLISWR 347
Query: 447 TKKQLIVSRSSSKEEYRALAAATCELQWLLYLLQDLQLQTSKLHVLYCDNQSALHIAANP 506
TKKQ VSRSSS+ EYRALAA CE+QWL YL Q L+L L+CDNQSALHIA NP
Sbjct: 346 TKKQTTVSRSSSEAEYRALAATVCEVQWLSYLFQFLKLNVPLPVPLFCDNQSALHIAHNP 167
Query: 507 IFHERTKHLEIDCHLVQDKLQ 527
FHERTKH+E+DCH+V+ KLQ
Sbjct: 166 TFHERTKHIELDCHVVRAKLQ 104
>BP075943
Length = 547
Score = 137 bits (345), Expect = 4e-33
Identities = 75/145 (51%), Positives = 92/145 (62%), Gaps = 1/145 (0%)
Frame = -3
Query: 267 EFNNIKSVLRASFKIKDLGQLKYFLGLQVAHSKQGISLCQRKYCLDLLADSGLTHSKP-I 325
E +KS L F+IKDLG+ KYFLGL++A S GI L QRKY L L++DSG +P
Sbjct: 473 EIQLVKSSLHDQFRIKDLGEAKYFLGLEIARSTSGIVLNQRKYALQLISDSGHFGFQPRF 294
Query: 326 STPSDPSVKLHRDSSPPYTDISAYRRLVGRLLYLNTTRPDITFVTQQLSQFLAKRTQVHH 385
+ S L ++ P TDI +YRR+VGRLLYLNTTRPDITF QLSQFL+ T +H
Sbjct: 293 YSHGTNSQTLGTNTGTPLTDIGSYRRIVGRLLYLNTTRPDITFAVNQLSQFLSAPTDIHE 114
Query: 386 SAAMRVLKYLKTSLGKGLFFPRDSA 410
LKYL S G GLF+P S+
Sbjct: 113 QQLTGFLKYL*GSPGSGLFYPASSS 39
>TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%)
Length = 553
Score = 85.5 bits (210), Expect = 2e-17
Identities = 35/55 (63%), Positives = 47/55 (84%)
Frame = +1
Query: 473 QWLLYLLQDLQLQTSKLHVLYCDNQSALHIAANPIFHERTKHLEIDCHLVQDKLQ 527
QWL YLLQDL++ + ++YCDN SA HIAANP+FHERTKH+EIDCH+V++++Q
Sbjct: 1 QWLTYLLQDLKVPFEQPALVYCDNNSARHIAANPVFHERTKHIEIDCHIVRERIQ 165
>TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, partial (4%)
Length = 670
Score = 85.1 bits (209), Expect = 3e-17
Identities = 37/58 (63%), Positives = 47/58 (80%)
Frame = +1
Query: 470 CELQWLLYLLQDLQLQTSKLHVLYCDNQSALHIAANPIFHERTKHLEIDCHLVQDKLQ 527
CEL WL Y+LQDL++ +LYCD+QSA HIA N +FHERTKHL+IDCH+V++KLQ
Sbjct: 1 CEL*WLTYILQDLRVPFISPSLLYCDSQSARHIATNAVFHERTKHLDIDCHVVREKLQ 174
>TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%)
Length = 550
Score = 75.5 bits (184), Expect = 2e-14
Identities = 31/53 (58%), Positives = 43/53 (80%)
Frame = +3
Query: 470 CELQWLLYLLQDLQLQTSKLHVLYCDNQSALHIAANPIFHERTKHLEIDCHLV 522
CE WL Y L DL++ + L V+YCDN+SALH+AAN +FH+RT+++EIDCH+V
Sbjct: 18 CEALWLTYALADLRIASLLLVVIYCDNRSALHLAANSVFHKRTENIEIDCHIV 176
>BP084332
Length = 368
Score = 63.2 bits (152), Expect = 1e-10
Identities = 26/78 (33%), Positives = 50/78 (63%)
Frame = +2
Query: 450 QLIVSRSSSKEEYRALAAATCELQWLLYLLQDLQLQTSKLHVLYCDNQSALHIAANPIFH 509
Q ++ S+++ EY + A + ++ W+ + L+D Q+ S + + YCDN +A+ ++ NPI H
Sbjct: 32 QSTIALSTAEAEYISAAICSTQMLWMKHQLEDYQILESNIPI-YCDNTAAISLSKNPILH 208
Query: 510 ERTKHLEIDCHLVQDKLQ 527
R KH+E+ H ++D +Q
Sbjct: 209 SRAKHIEVKYHFIRDYVQ 262
>BP043850
Length = 515
Score = 59.3 bits (142), Expect = 1e-09
Identities = 26/54 (48%), Positives = 38/54 (70%)
Frame = -1
Query: 471 ELQWLLYLLQDLQLQTSKLHVLYCDNQSALHIAANPIFHERTKHLEIDCHLVQD 524
E+ WL LL +L S+ L+ DN SA+ IAANP++HE T+H+E+DCH V++
Sbjct: 512 EIIWLRGLLSELGFLQSQPTPLHADNTSAIQIAANPVYHEWTRHIEVDCHSVRE 351
>AV411594
Length = 244
Score = 50.1 bits (118), Expect(2) = 4e-09
Identities = 27/65 (41%), Positives = 37/65 (56%)
Frame = +2
Query: 290 FLGLQVAHSKQGISLCQRKYCLDLLADSGLTHSKPISTPSDPSVKLHRDSSPPYTDISAY 349
FL +A SK+GI L +RKY L LL D+ KP P DPS+KL+ +D++ Y
Sbjct: 50 FLRT*IAKSKKGILLSRRKYALQLLDDTRNMGCKPPPFPLDPSIKLNSTDGELLSDVTLY 229
Query: 350 RRLVG 354
R +G
Sbjct: 230 IRFIG 244
Score = 27.7 bits (60), Expect(2) = 4e-09
Identities = 12/20 (60%), Positives = 15/20 (75%)
Frame = +3
Query: 275 LRASFKIKDLGQLKYFLGLQ 294
L SFK+K L +KYFLGL+
Sbjct: 6 LAKSFKLKVLDDMKYFLGLE 65
>AV766665
Length = 601
Score = 56.2 bits (134), Expect = 1e-08
Identities = 28/75 (37%), Positives = 45/75 (59%)
Frame = +3
Query: 390 RVLKYLKTSLGKGLFFPRDSALQILGFSDADWAGCLDSRRSISGQCFFLGKSLISWRTKK 449
R+ YLK + +G F ++ + GF+ AD+ G + R S G FL +L++WR+K+
Sbjct: 372 RIF*YLKANSRRGPLFQKEGKSSMDGFTYADYLGSIVDRLSTMGYYMFLSGNLVTWRSKQ 551
Query: 450 QLIVSRSSSKEEYRA 464
Q I++RSS + E RA
Sbjct: 552 QNIIARSSGEAELRA 596
>AV424544
Length = 276
Score = 51.2 bits (121), Expect = 4e-07
Identities = 25/44 (56%), Positives = 31/44 (69%)
Frame = +3
Query: 266 SEFNNIKSVLRASFKIKDLGQLKYFLGLQVAHSKQGISLCQRKY 309
+E +K+ L F+IKDLG LKYFLGL+VA S G+ L QRKY
Sbjct: 144 NEIQCVKNKLDIQFRIKDLGTLKYFLGLEVARSSCGLFLSQRKY 275
>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 = 42.4 bits (98), Expect(2) = 1e-06
Identities = 15/30 (50%), Positives = 22/30 (73%)
Frame = +2
Query: 491 VLYCDNQSALHIAANPIFHERTKHLEIDCH 520
VLYCDNQ A+++ N FH R+KH+++ H
Sbjct: 170 VLYCDNQGAIYLGQNSTFHSRSKHIDVRYH 259
Score = 26.9 bits (58), Expect(2) = 1e-06
Identities = 12/39 (30%), Positives = 23/39 (58%)
Frame = +3
Query: 443 ISWRTKKQLIVSRSSSKEEYRALAAATCELQWLLYLLQD 481
++W ++ Q V+ S+++ E+ A A EL W+ LQ+
Sbjct: 27 VAWPSRLQKCVALSTAEAEFIAATEACHELLWMKNFLQN 143
>BP084259
Length = 385
Score = 49.7 bits (117), Expect = 1e-06
Identities = 19/58 (32%), Positives = 33/58 (56%)
Frame = -3
Query: 463 RALAAATCELQWLLYLLQDLQLQTSKLHVLYCDNQSALHIAANPIFHERTKHLEIDCH 520
R + + E WL LL++LQ K+ ++ +N +A ++ N +FH KH+ +DCH
Sbjct: 179 RTIGSTAAEFLWLQQLLKELQFSLPKVPCIFSNNINATYVCLNLVFHSHMKHVALDCH 6
>BP057233
Length = 473
Score = 49.3 bits (116), Expect = 2e-06
Identities = 18/36 (50%), Positives = 29/36 (80%)
Frame = -2
Query: 491 VLYCDNQSALHIAANPIFHERTKHLEIDCHLVQDKL 526
+L+CDN SA +A+NP+ H R+KH+EID H ++D++
Sbjct: 448 ILWCDNLSAKALASNPVLHARSKHIEIDVHYIRDQV 341
>TC17418 similar to UP|Q94AX2 (Q94AX2) AT5g39790/MKM21_80, partial (20%)
Length = 739
Score = 48.1 bits (113), Expect = 3e-06
Identities = 43/141 (30%), Positives = 64/141 (44%), Gaps = 1/141 (0%)
Frame = -1
Query: 306 QRKYCLDLLADSGLTHSKPISTP-SDPSVKLHRDSSPPYTDISAYRRLVGRLLYLNTTRP 364
Q+ Y D+L +T+SK IST ++ R + D + Y+ L+G + YLNT R
Sbjct: 739 QKIYVDDILKKFKMTNSKYISTTIGGKEIEAGRRNGGKRVDSTYYKSLIGSVRYLNTVRS 560
Query: 365 DITFVTQQLSQFLAKRTQVHHSAAMRVLKYLKTSLGKGLFFPRDSALQILGFSDADWAGC 424
DI S+F+ + H A R L+Y+K +L G+F L I + D
Sbjct: 559 DIVCGVGLRSRFM-EP*DCH*QGAQRSLRYIKGTLKDGIFM-----LVITM*NSLD---- 410
Query: 425 LDSRRSISGQCFFLGKSLISW 445
+ G F LG+ ISW
Sbjct: 409 -TQIVTRPGYAFHLGRGAISW 350
>TC10484 similar to UP|Q850H7 (Q850H7) Gag-pol polyprotein (Fragment),
partial (20%)
Length = 479
Score = 34.3 bits (77), Expect(2) = 1e-05
Identities = 13/33 (39%), Positives = 23/33 (69%)
Frame = +3
Query: 474 WLLYLLQDLQLQTSKLHVLYCDNQSALHIAANP 506
W+ +L ++ ++ L+CDNQ+ALHI++NP
Sbjct: 3 WVGQILSEMGIERISPMPLWCDNQAALHISSNP 101
Score = 31.2 bits (69), Expect(2) = 1e-05
Identities = 10/12 (83%), Positives = 12/12 (99%)
Frame = +2
Query: 509 HERTKHLEIDCH 520
HERTKH+E+DCH
Sbjct: 113 HERTKHIEVDCH 148
>TC19474 weakly similar to UP|Q9FJA1 (Q9FJA1) Similarity to retroelement pol
polyprotein, partial (3%)
Length = 517
Score = 36.6 bits (83), Expect(2) = 3e-05
Identities = 15/32 (46%), Positives = 25/32 (77%)
Frame = -1
Query: 438 LGKSLISWRTKKQLIVSRSSSKEEYRALAAAT 469
L +LISW++K+ +IV+RS ++ E+R +A AT
Sbjct: 517 LSDNLISWKSKETIIVARSRAEAEFRVMATAT 422
Score = 27.7 bits (60), Expect(2) = 3e-05
Identities = 14/31 (45%), Positives = 20/31 (64%)
Frame = -2
Query: 495 DNQSALHIAANPIFHERTKHLEIDCHLVQDK 525
DN++ALH+ F R KH+EID H + D+
Sbjct: 354 DNKAALHMP-KI*FSMRAKHIEIDFHFL*DR 265
>BP052124
Length = 467
Score = 40.8 bits (94), Expect = 6e-04
Identities = 17/34 (50%), Positives = 22/34 (64%)
Frame = -2
Query: 493 YCDNQSALHIAANPIFHERTKHLEIDCHLVQDKL 526
+CDN SAL +A PI H R H E+DC ++KL
Sbjct: 454 FCDNNSALTLAPRPI*HSRPVHFEVDCPYPKEKL 353
>AV779990
Length = 542
Score = 34.3 bits (77), Expect(2) = 0.004
Identities = 14/20 (70%), Positives = 17/20 (85%)
Frame = +3
Query: 495 DNQSALHIAANPIFHERTKH 514
DN +AL I++NPI HERTKH
Sbjct: 312 DNHAALDISSNPISHERTKH 371
Score = 22.7 bits (47), Expect(2) = 0.004
Identities = 6/14 (42%), Positives = 12/14 (84%)
Frame = +1
Query: 514 HLEIDCHLVQDKLQ 527
++E+DCH + +KL+
Sbjct: 367 NIEVDCHFICEKLE 408
>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 = 37.0 bits (84), Expect = 0.008
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Frame = +2
Query: 271 IKSVLRASFKIKDLGQLKYFLGLQVAHSKQG--ISLCQRKYCLDLLADSGLTHSKPISTP 328
+K+ L F +KDLG LG+Q+ ++ I L Q+ Y +L + PISTP
Sbjct: 155 LKAQLAREFDMKDLGPANKILGMQIHRDRKDRRIWLSQKNYLQKVLRRFNMQDCNPISTP 334
Query: 329 SDPSVKLHRDSSP 341
+ KL P
Sbjct: 335 LPVNYKLSSSMIP 373
>BP066094
Length = 532
Score = 29.6 bits (65), Expect(2) = 0.008
Identities = 13/37 (35%), Positives = 23/37 (62%)
Frame = +2
Query: 258 ILF*QEIHSEFNNIKSVLRASFKIKDLGQLKYFLGLQ 294
I+F S +++A F+++ +G+LKYFLG+Q
Sbjct: 422 IIFGSANPSLCKEFSEMMQAEFEMRMMGELKYFLGIQ 532
Score = 26.2 bits (56), Expect(2) = 0.008
Identities = 13/27 (48%), Positives = 17/27 (62%)
Frame = +3
Query: 201 FDNWLNPSMD*SEPPENGMKGSPLCYW 227
F N N SM *S+ PE+GM+ S +W
Sbjct: 249 FSN*RNLSMV*SKLPEHGMRDSAHSFW 329
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
0.355 0.156 0.561
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,223,083
Number of Sequences: 28460
Number of extensions: 189712
Number of successful extensions: 2571
Number of sequences better than 10.0: 52
Number of HSP's better than 10.0 without gapping: 1963
Number of HSP's successfully gapped in prelim test: 69
Number of HSP's that attempted gapping in prelim test: 572
Number of HSP's gapped (non-prelim): 2081
length of query: 527
length of database: 4,897,600
effective HSP length: 94
effective length of query: 433
effective length of database: 2,222,360
effective search space: 962281880
effective search space used: 962281880
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 14 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 37 (21.6 bits)
S2: 57 (26.6 bits)
Medicago: description of AC123574.1