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= AC148219.4 + phase: 0 /pseudo
(1109 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
AV780009 172 3e-43
TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, p... 114 6e-26
TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%) 108 5e-24
BP084332 89 4e-18
TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%) 84 2e-16
BP043850 70 2e-12
BP063694 67 2e-11
BP057233 67 2e-11
BP081717 53 2e-07
BP058111 52 4e-07
AV766088 51 9e-07
TC19474 weakly similar to UP|Q9FJA1 (Q9FJA1) Similarity to retro... 35 3e-06
BP033602 48 1e-05
BP084259 44 1e-04
AV766665 43 3e-04
TC19389 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela... 42 5e-04
TC10484 similar to UP|Q850H7 (Q850H7) Gag-pol polyprotein (Fragm... 41 0.001
AV768241 36 0.029
BP052124 36 0.038
BP054557 35 0.050
>AV780009
Length = 529
Score = 172 bits (435), Expect = 3e-43
Identities = 89/140 (63%), Positives = 104/140 (73%), Gaps = 1/140 (0%)
Frame = -1
Query: 949 VKVFFFPDVDWAGCLDSRRSIFGQCFFLGNSLISWRTMKQLTISRSSSEAEYRALSAATY 1008
+K+ + D DWAGC D+RRS+ G FLG SLISWRT KQ T+SRSSSEAEYRAL+A
Sbjct: 454 LKLQAYSDSDWAGCPDTRRSVTGYSIFLGTSLISWRTKKQTTVSRSSSEAEYRALAATVC 275
Query: 1009 ELQWLLYLLNDLHVTTVKLPV-LYCDNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAG 1067
E+QWL YL L + V LPV L+CDNQSALHI NP FHE TKHIE+ CH+VR KLQAG
Sbjct: 274 EVQWLSYLFQFLKLN-VPLPVPLFCDNQSALHIAHNPTFHERTKHIELDCHVVRAKLQAG 98
Query: 1068 IIKFLLVSSKDQLADIFTNP 1087
+I L +S+ QLADIFT P
Sbjct: 97 LIHLLPISTHHQLADIFTKP 38
>TC15664 weakly similar to UP|O81617 (O81617) F8M12.17 protein, partial (4%)
Length = 670
Score = 114 bits (286), Expect = 6e-26
Identities = 57/100 (57%), Positives = 70/100 (70%)
Frame = +1
Query: 1009 ELQWLLYLLNDLHVTTVKLPVLYCDNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAGI 1068
EL WL Y+L DL V + +LYCD+QSA HI TN +FHE TKH++I CH+VR+KLQA +
Sbjct: 4 EL*WLTYILQDLRVPFISPSLLYCDSQSARHIATNAVFHERTKHLDIDCHVVREKLQAKL 183
Query: 1069 IKFLLVSSKDQLADIFTNPLLPQPFSTLLSNLGMLNSYHS 1108
L +SS DQ ADI T PL PFS L+S LG+LN Y S
Sbjct: 184 FHLLPISSVDQTADILTKPLESGPFSHLVSKLGVLNIYSS 303
>TC16929 weakly similar to UP|Q9LFY6 (Q9LFY6) T7N9.5, partial (4%)
Length = 553
Score = 108 bits (270), Expect = 5e-24
Identities = 50/94 (53%), Positives = 66/94 (70%)
Frame = +1
Query: 1011 QWLLYLLNDLHVTTVKLPVLYCDNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAGIIK 1070
QWL YLL DL V + ++YCDN SA HI NP+FHE TKHIEI CH+VR+++Q G+I
Sbjct: 1 QWLTYLLQDLKVPFEQPALVYCDNNSARHIAANPVFHERTKHIEIDCHIVRERIQKGLIH 180
Query: 1071 FLLVSSKDQLADIFTNPLLPQPFSTLLSNLGMLN 1104
L +SS + LADI+T L PQ F + + LG++N
Sbjct: 181 LLPISSSEPLADIYTKALSPQNFHQICAKLGLIN 282
>BP084332
Length = 368
Score = 89.0 bits (219), Expect = 4e-18
Identities = 42/113 (37%), Positives = 67/113 (59%)
Frame = +2
Query: 988 QLTISRSSSEAEYRALSAATYELQWLLYLLNDLHVTTVKLPVLYCDNQSALHIGTNPMFH 1047
Q TI+ S++EAEY + + + ++ W+ + L D + +P+ YCDN +A+ + NP+ H
Sbjct: 32 QSTIALSTAEAEYISAAICSTQMLWMKHQLEDYQILESNIPI-YCDNTAAISLSKNPILH 208
Query: 1048 EITKHIEIICHLVRDKLQAGIIKFLLVSSKDQLADIFTNPLLPQPFSTLLSNL 1100
KHIE+ H +RD +Q G++ V + Q ADIFT PL F+ +L NL
Sbjct: 209 SRAKHIEVKYHFIRDYVQKGVLLLKFVDTDHQWADIFTKPLAEDRFNFILKNL 367
>TC8952 similar to UP|O82607 (O82607) T2L5.9 protein, partial (3%)
Length = 550
Score = 83.6 bits (205), Expect = 2e-16
Identities = 39/80 (48%), Positives = 55/80 (68%)
Frame = +3
Query: 1009 ELQWLLYLLNDLHVTTVKLPVLYCDNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAGI 1068
E WL Y L DL + ++ L V+YCDN+SALH+ N +FH+ T++IEI CH+V K+ GI
Sbjct: 21 EALWLTYALADLRIASLLLVVIYCDNRSALHLAANSVFHKRTENIEIDCHIV*VKVLFGI 200
Query: 1069 IKFLLVSSKDQLADIFTNPL 1088
+ L V S DQ+AD+FT +
Sbjct: 201 LHLLHVPSSDQVADVFTKTI 260
>BP043850
Length = 515
Score = 70.1 bits (170), Expect = 2e-12
Identities = 38/97 (39%), Positives = 56/97 (57%)
Frame = -1
Query: 1009 ELQWLLYLLNDLHVTTVKLPVLYCDNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAGI 1068
E+ WL LL++L + L+ DN SA+ I NP++HE T+HIE+ CH VR+ +
Sbjct: 512 EIIWLRGLLSELGFLQSQPTPLHADNTSAIQIAANPVYHEWTRHIEVDCHSVREAYDRRV 333
Query: 1069 IKFLLVSSKDQLADIFTNPLLPQPFSTLLSNLGMLNS 1105
I VS+ Q+ADI T L Q + L+S L ++ S
Sbjct: 332 ITLPHVSTSVQIADILTKSLTRQRHNFLVSKLMLVES 222
>BP063694
Length = 511
Score = 66.6 bits (161), Expect = 2e-11
Identities = 39/113 (34%), Positives = 55/113 (48%), Gaps = 2/113 (1%)
Frame = -2
Query: 15 SFAL*HFRLGHVSYE--RLAHMSQLYPF*LFFDSNATCDICHFARQKQLPFHLSSSVASN 72
SF L H RLGHV+++ + H C C A+ K+L FH ++ AS
Sbjct: 369 SFELWHSRLGHVNFDIIKQLHKHGCLDVSSILPKPICCTSCQMAKSKRLVFHDNNKRASA 190
Query: 73 KFELLHFDI*GPLIVPFIHNHKYFLTILDDSSRFVWIVLLKSKAEVSQHVKNF 125
+L+H D+ GP V I YF+ +DD SRF W LK K++ S + F
Sbjct: 189 VLDLIHCDLRGPSPVASIDGFSYFVIFVDDFSRFTWFYPLKRKSDFSDVLLRF 31
>BP057233
Length = 473
Score = 66.6 bits (161), Expect = 2e-11
Identities = 32/78 (41%), Positives = 47/78 (60%)
Frame = -2
Query: 1028 PVLYCDNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAGIIKFLLVSSKDQLADIFTNP 1087
P+L+CDN SA + +NP+ H +KHIEI H +RD++ + V + DQ+AD T P
Sbjct: 451 PILWCDNLSAKALASNPVLHARSKHIEIDVHYIRDQVLQNEVVVAYVPTTDQIADCLTKP 272
Query: 1088 LLPQPFSTLLSNLGMLNS 1105
L FS L LG+++S
Sbjct: 271 LSHTRFSQLRDKLGVIHS 218
>BP081717
Length = 291
Score = 53.1 bits (126), Expect = 2e-07
Identities = 24/53 (45%), Positives = 36/53 (67%)
Frame = -1
Query: 16 FAL*HFRLGHVSYERLAHMSQLYPF*LFFDSNATCDICHFARQKQLPFHLSSS 68
F + HFRLGH S + L H+S+++P+ + SN CD CH A+Q +LPF +S +
Sbjct: 174 FDMWHFRLGHPSSKVLQHISKVFPY-VKLHSNIICDFCHMAKQTKLPFPISDT 19
>BP058111
Length = 570
Score = 52.4 bits (124), Expect = 4e-07
Identities = 24/59 (40%), Positives = 37/59 (62%)
Frame = -1
Query: 20 HFRLGHVSYERLAHMSQLYPF*LFFDSNATCDICHFARQKQLPFHLSSSVASNKFELLH 78
H RLGH S ++LA + + +PF + CD CH A+QK+L F S +++S F+L+H
Sbjct: 180 HLRLGHTSSKKLAILQKNFPFITCKKITSPCDTCHMAKQKKLSFPNSVTLSSEIFDLIH 4
>AV766088
Length = 501
Score = 51.2 bits (121), Expect = 9e-07
Identities = 32/115 (27%), Positives = 62/115 (53%), Gaps = 1/115 (0%)
Frame = -3
Query: 5 VSVNKLIAILSFAL*HFRLGHVSYERLAHM-SQLYPF*LFFDSNATCDICHFARQKQLPF 63
V+++ A ++ +L H RLGH S L ++ S + + + C+ C F + +LPF
Sbjct: 346 VTLSFPFAGIAQSLWHSRLGHPSSSALRYLRSNKFISYELLNYSPVCESCVFGKHVRLPF 167
Query: 64 HLSSSVASNKFELLHFDI*GPLIVPFIHNHKYFLTILDDSSRFVWIVLLKSKAEV 118
S++V F++LH D+ ++ H++++ LDD + F+W L +K++V
Sbjct: 166 VSSNNVTVMPFDILHSDLWTSPVLSSA-GHRFYVLFLDDFTDFLWTFPLSNKSQV 5
>TC19474 weakly similar to UP|Q9FJA1 (Q9FJA1) Similarity to retroelement pol
polyprotein, partial (3%)
Length = 517
Score = 35.0 bits (79), Expect(2) = 3e-06
Identities = 13/32 (40%), Positives = 25/32 (77%)
Frame = -1
Query: 976 LGNSLISWRTMKQLTISRSSSEAEYRALSAAT 1007
L ++LISW++ + + ++RS +EAE+R ++ AT
Sbjct: 517 LSDNLISWKSKETIIVARSRAEAEFRVMATAT 422
Score = 33.9 bits (76), Expect(2) = 3e-06
Identities = 22/53 (41%), Positives = 29/53 (54%)
Frame = -2
Query: 1033 DNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAGIIKFLLVSSKDQLADIFT 1085
DN++ALH+ F KHIEI H + D+ I V+S DQL D+FT
Sbjct: 354 DNKAALHM-PKI*FSMRAKHIEIDFHFL*DRRLYLDISTRFVNSNDQLTDVFT 199
>BP033602
Length = 533
Score = 47.8 bits (112), Expect = 1e-05
Identities = 28/86 (32%), Positives = 47/86 (54%), Gaps = 3/86 (3%)
Frame = +3
Query: 20 HFRLGHVSYERLAHMSQLYPF*LFFDSNAT---CDICHFARQKQLPFHLSSSVASNKFEL 76
H RLGH +++ L H L+P LF + N + C+ C A+ ++ P++ AS F L
Sbjct: 282 HNRLGHPNFQYLRH---LFPD-LFKNVNCSSLECESCVLAKNQRAPYYSQPYHASRPFYL 449
Query: 77 LHFDI*GPLIVPFIHNHKYFLTILDD 102
+H D+ GP + ++F+T +DD
Sbjct: 450 IHSDVWGPSKITTQFGKRWFVTFIDD 527
>BP084259
Length = 385
Score = 43.9 bits (102), Expect = 1e-04
Identities = 18/58 (31%), Positives = 32/58 (55%)
Frame = -3
Query: 1001 RALSAATYELQWLLYLLNDLHVTTVKLPVLYCDNQSALHIGTNPMFHEITKHIEIICH 1058
R + + E WL LL +L + K+P ++ +N +A ++ N +FH KH+ + CH
Sbjct: 179 RTIGSTAAEFLWLQQLLKELQFSLPKVPCIFSNNINATYVCLNLVFHSHMKHVALDCH 6
>AV766665
Length = 601
Score = 42.7 bits (99), Expect = 3e-04
Identities = 21/49 (42%), Positives = 29/49 (58%)
Frame = +3
Query: 954 FPDVDWAGCLDSRRSIFGQCFFLGNSLISWRTMKQLTISRSSSEAEYRA 1002
F D+ G + R S G FL +L++WR+ +Q I+RSS EAE RA
Sbjct: 450 FTYADYLGSIVDRLSTMGYYMFLSGNLVTWRSKQQNIIARSSGEAELRA 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 = 42.0 bits (97), Expect = 5e-04
Identities = 16/30 (53%), Positives = 22/30 (73%)
Frame = +2
Query: 1029 VLYCDNQSALHIGTNPMFHEITKHIEIICH 1058
VLYCDNQ A+++G N FH +KHI++ H
Sbjct: 170 VLYCDNQGAIYLGQNSTFHSRSKHIDVRYH 259
Score = 33.1 bits (74), Expect = 0.25
Identities = 24/110 (21%), Positives = 53/110 (47%), Gaps = 2/110 (1%)
Frame = +3
Query: 981 ISWRTMKQLTISRSSSEAEYRALSAATYELQWLLYLLNDLHVTTVKLPVLYC--DNQSAL 1038
++W + Q ++ S++EAE+ A + A +EL W+ L + + P+L C ++
Sbjct: 27 VAWPSRLQKCVALSTAEAEFIAATEACHELLWMKNFLQNAWFHS--HPILCCIVITKALF 200
Query: 1039 HIGTNPMFHEITKHIEIICHLVRDKLQAGIIKFLLVSSKDQLADIFTNPL 1088
+ +F + + + +RD L + +++ + + D AD+ T L
Sbjct: 201 TLARILLFIQDPSTLMFVIIGLRDVLNSKLLELEKIHTDDDGADMMTKSL 350
>TC10484 similar to UP|Q850H7 (Q850H7) Gag-pol polyprotein (Fragment), partial
(20%)
Length = 479
Score = 41.2 bits (95), Expect = 0.001
Identities = 25/73 (34%), Positives = 41/73 (55%), Gaps = 3/73 (4%)
Frame = +3
Query: 1012 WLLYLLNDLHVTTVKLPVLYCDNQSALHIGTNPMFHEITKHIEI---ICHLVRDKLQAGI 1068
W+ +L+++ + + L+CDNQ+ALHI +NP + K + I I L+R+KLQ
Sbjct: 3 WVGQILSEMGIERISPMPLWCDNQAALHISSNPSSLSM-KELNILRWIAILLREKLQQNP 179
Query: 1069 IKFLLVSSKDQLA 1081
+ L + D LA
Sbjct: 180 YLYFLC*NGDSLA 218
>AV768241
Length = 434
Score = 36.2 bits (82), Expect = 0.029
Identities = 27/63 (42%), Positives = 36/63 (56%), Gaps = 1/63 (1%)
Frame = +2
Query: 687 TSLFSVFCPHSHAY-RETSR*VTHPKIAPSQARLTVEFLWNELPKRRCILLI*VVQNNSY 745
T +FS+ +HA+ +TS+ VTH IAP QA LT+E CILL+*VV S+
Sbjct: 233 T*VFSMRFVLTHAFFGKTSQDVTHHNIAPRQAHLTLEL---------CILLL*VVPIKSF 385
Query: 746 KPS 748
S
Sbjct: 386 MSS 394
>BP052124
Length = 467
Score = 35.8 bits (81), Expect = 0.038
Identities = 15/39 (38%), Positives = 22/39 (55%)
Frame = -2
Query: 1031 YCDNQSALHIGTNPMFHEITKHIEIICHLVRDKLQAGII 1069
+CDN SAL + P+ H H E+ C ++KL G+I
Sbjct: 454 FCDNNSALTLAPRPI*HSRPVHFEVDCPYPKEKLGTGLI 338
>BP054557
Length = 538
Score = 35.4 bits (80), Expect = 0.050
Identities = 15/37 (40%), Positives = 21/37 (56%)
Frame = -2
Query: 20 HFRLGHVSYERLAHMSQLYPF*LFFDSNATCDICHFA 56
H RLGH S ++LA + + +PF + CD CH A
Sbjct: 111 HLRLGHTSSKKLAILQKNFPFITCKQITSPCDTCHMA 1
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
0.362 0.160 0.603
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,124,723
Number of Sequences: 28460
Number of extensions: 455000
Number of successful extensions: 6325
Number of sequences better than 10.0: 56
Number of HSP's better than 10.0 without gapping: 4624
Number of HSP's successfully gapped in prelim test: 181
Number of HSP's that attempted gapping in prelim test: 1434
Number of HSP's gapped (non-prelim): 5152
length of query: 1109
length of database: 4,897,600
effective HSP length: 100
effective length of query: 1009
effective length of database: 2,051,600
effective search space: 2070064400
effective search space used: 2070064400
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 14 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 37 (22.0 bits)
S2: 60 (27.7 bits)
Medicago: description of AC148219.4