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= AC145061.22 - phase: 0 /pseudo
(604 letters)
Database: GMGI
63,676 sequences; 37,918,896 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
BI784757 126 2e-29
TC204438 homologue to UP|Q84VH6 (Q84VH6) Gag-pol polyprotein, co... 104 1e-22
TC204439 UP|Q84VI4 (Q84VI4) Gag-pol polyprotein, complete 103 3e-22
TC222253 similar to UP|Q9ZQE4 (Q9ZQE4) Copia-like retroelement p... 86 5e-17
BI424202 47 5e-12
BI701169 68 1e-11
TC235104 weakly similar to UP|Q850H8 (Q850H8) Gag-pol polyprotei... 58 1e-08
BI425191 weakly similar to GP|14586969|gb| pol polyprotein {Citr... 56 5e-08
CO981347 35 1e-05
BE330079 39 0.009
CO981879 32 1.1
BU083646 weakly similar to GP|6642775|gb| gag-pol polyprotein {V... 31 1.8
BI702130 weakly similar to GP|4234854|gb| pol polyprotein {Zea m... 30 2.4
BF595216 29 5.3
BI425121 29 6.9
BI425007 similar to SP|Q9BBS8|RPOC_ DNA-directed RNA polymerase ... 29 6.9
TC220086 homologue to UP|Q7XUF0 (Q7XUF0) OJ991113_30.19 protein,... 28 9.0
TC226635 similar to UP|Q84N37 (Q84N37) Potyvirus VPg interacting... 28 9.0
>BI784757
Length = 430
Score = 126 bits (317), Expect = 2e-29
Identities = 60/132 (45%), Positives = 88/132 (66%)
Frame = +1
Query: 473 KEMILVVPKLDIPHKFYDTRLIGKQPRTAFISTTTHRSKEVLNVVYFDVNGPLEVPSMGR 532
+EM+L +P++ P + D L KQ R+ F R+KE L V+Y DV GP++ S+G
Sbjct: 19 REMVLGLPQIKPPSEVCDGCLQCKQSRSTFKQNVPIRAKEKLEVIYSDVCGPMQTESLGG 198
Query: 533 IKYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKFFVEKQSGKSITSLRTDGGGEYTIKV 592
+YFISF+DE ++ +WV LI+ KS F++F+KFK +KQSG I LRT+GGGEY
Sbjct: 199 NRYFISFIDELTRKVWVYLIRRKSDFFEVFEKFKNMAKKQSGSLIKILRTNGGGEYVSTE 378
Query: 593 FEKFCEENGVIH 604
F++FC++ G+IH
Sbjct: 379 FQEFCDQQGIIH 414
>TC204438 homologue to UP|Q84VH6 (Q84VH6) Gag-pol polyprotein, complete
Length = 4734
Score = 104 bits (260), Expect = 1e-22
Identities = 53/217 (24%), Positives = 108/217 (49%), Gaps = 1/217 (0%)
Frame = +1
Query: 389 NLLSVGQLVQKGYSITMKDNSLKLFDKNQRLVMKTPLAKNKTF*TDMKVAKLNCLSAIVN 448
NL+S+ QL +G+++ + + ++ ++MK +K+ + + +
Sbjct: 1879 NLISISQLCDEGFNVNFTKSECLVTNEKSEVLMKGSRSKDNCYLWTPQETSYSSTCLFSK 2058
Query: 449 NEDSWLWHYMFGHLNYISLNHLVDKEMILVVPKLDIPH-KFYDTRLIGKQPRTAFISTTT 507
++ +WH FGHL+ + ++DK + +P L I + IGKQ + +
Sbjct: 2059 EDEVKIWHQRFGHLHLRGMKKIIDKGAVRGIPNLKIEEGRICGECQIGKQVKMSHQKLQH 2238
Query: 508 HRSKEVLNVVYFDVNGPLEVPSMGRIKYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKF 567
+ VL +++ D+ GP++V S+G +Y +D+FS+ WV I+ KS F++F++
Sbjct: 2239 QTTSRVLELLHMDLMGPMQVESLGGKRYAYVVVDDFSRFTWVNFIREKSDTFEVFKELSL 2418
Query: 568 FVEKQSGKSITSLRTDGGGEYTIKVFEKFCEENGVIH 604
++++ I +R+D G E+ F +FC G+ H
Sbjct: 2419 RLQREKDCVIKRIRSDHGREFENSKFTEFCTSEGITH 2529
>TC204439 UP|Q84VI4 (Q84VI4) Gag-pol polyprotein, complete
Length = 4731
Score = 103 bits (256), Expect = 3e-22
Identities = 53/217 (24%), Positives = 108/217 (49%), Gaps = 1/217 (0%)
Frame = +1
Query: 389 NLLSVGQLVQKGYSITMKDNSLKLFDKNQRLVMKTPLAKNKTF*TDMKVAKLNCLSAIVN 448
NL+S+ QL +G+++ + + ++ ++MK +K+ + + +
Sbjct: 1876 NLISISQLCDEGFNVNFTKSECLVTNEKSEVLMKGSRSKDNCYLWTPQETSYSSTCLSSK 2055
Query: 449 NEDSWLWHYMFGHLNYISLNHLVDKEMILVVPKLDIPH-KFYDTRLIGKQPRTAFISTTT 507
++ +WH FGHL+ + ++DK + +P L I + IGKQ + +
Sbjct: 2056 EDEVRIWHQRFGHLHLRGMKKIIDKGAVRGIPNLKIEEGRICGECQIGKQVKMSHQKLQH 2235
Query: 508 HRSKEVLNVVYFDVNGPLEVPSMGRIKYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKF 567
+ VL +++ D+ GP++V S+G +Y +D+FS+ WV I+ KS F++F++
Sbjct: 2236 QTTSRVLELLHMDLMGPMQVESLGGKRYAYVVVDDFSRFTWVNFIREKSETFEVFKELSL 2415
Query: 568 FVEKQSGKSITSLRTDGGGEYTIKVFEKFCEENGVIH 604
++++ I +R+D G E+ F +FC G+ H
Sbjct: 2416 RLQREKDCVIKRIRSDHGREFENSRFTEFCTSEGITH 2526
>TC222253 similar to UP|Q9ZQE4 (Q9ZQE4) Copia-like retroelement pol
polyprotein, partial (4%)
Length = 919
Score = 85.9 bits (211), Expect = 5e-17
Identities = 52/143 (36%), Positives = 87/143 (60%), Gaps = 1/143 (0%)
Frame = +1
Query: 463 NYISLNHLVDKEMILV-VPKLDIPHKFYDTRLIGKQPRTAFISTTTHRSKEVLNVVYFDV 521
N+ L+ ++ +E I+ +P ++I DT IGK+ R +F + + R K++L +V+ D+
Sbjct: 250 NFHFLD*IIFQEKIVYDLPIMNILDGVCDTCEIGKKHRESFPTGKSWRMKKLLKIVHLDL 429
Query: 522 NGPLEVPSMGRIKYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKFFVEKQSGKSITSLR 581
+E+P+ G YFI+F+D+FSK +WV +K KS A + F+ FK F EKQ+G + +L
Sbjct: 430 C-TVEIPTHGDNNYFITFIDDFSKKMWVYFLKQKSEACNAFKMFKAFAEKQNGCKVKALI 606
Query: 582 TDGGGEYTIKVFEKFCEENGVIH 604
D G EY + F E++G+ H
Sbjct: 607 IDKGQEYL--SYTIFFEKHGIQH 669
>BI424202
Length = 421
Score = 47.4 bits (111), Expect(2) = 5e-12
Identities = 29/107 (27%), Positives = 55/107 (51%)
Frame = -3
Query: 446 IVNNEDSWLWHYMFGHLNYISLNHLVDKEMILVVPKLDIPHKFYDTRLIGKQPRTAFIST 505
I+N E S LWH GH++ + LV++ ++ + D + Y + GKQ +
Sbjct: 401 IMNEESSMLWHRRLGHISIERIKRLVNEGVLSTLDFADF--ETYVDCIKGKQTNKS--KK 234
Query: 506 TTHRSKEVLNVVYFDVNGPLEVPSMGRIKYFISFLDEFSKNIWVCLI 552
RS +L +++ D+ P +KYFI+F+D++S+ +++ I
Sbjct: 233 GAKRSSNLLEIIHTDICCP--DMDANSLKYFITFIDDYSRYMYLYFI 99
Score = 42.0 bits (97), Expect(2) = 5e-12
Identities = 20/40 (50%), Positives = 28/40 (70%)
Frame = -2
Query: 547 IWVCLIKAKSGAFDIFQKFKFFVEKQSGKSITSLRTDGGG 586
I+V L+ +K+ A D+F+ FK VEKQ GK I +R+D GG
Sbjct: 120 IYVSLLHSKNEALDVFKVFKAEVEKQCGKQIKIMRSDRGG 1
>BI701169
Length = 407
Score = 67.8 bits (164), Expect = 1e-11
Identities = 29/67 (43%), Positives = 45/67 (66%)
Frame = +2
Query: 536 FISFLDEFSKNIWVCLIKAKSGAFDIFQKFKFFVEKQSGKSITSLRTDGGGEYTIKVFEK 595
F F+D+FS+ WV K K F+ F+KFK VEK+SG I ++R+D GGE+ F+K
Sbjct: 113 FFLFIDDFSRKTWVYFFKHKLEVFENFKKFKAIVEKESGFKIKAMRSDRGGEF*SNEFQK 292
Query: 596 FCEENGV 602
+C+++G+
Sbjct: 293 YCDDHGI 313
>TC235104 weakly similar to UP|Q850H8 (Q850H8) Gag-pol polyprotein
(Fragment), partial (28%)
Length = 865
Score = 58.2 bits (139), Expect = 1e-08
Identities = 42/139 (30%), Positives = 69/139 (49%), Gaps = 1/139 (0%)
Frame = +2
Query: 467 LNHLVDKEMILVVPKLD-IPHKFYDTRLIGKQPRTAFISTTTHRSKEVLNVVYFDVNGPL 525
L H ++ ++VP L+ I F ++ +GK R++ + L V++ D+ GP
Sbjct: 326 LGHPHLSKLKIMVPSLEKIKDLFCESCQLGKHVRSSXRHVESRVDSPFL-VIHXDIWGPN 502
Query: 526 EVPSMGRIKYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKFFVEKQSGKSITSLRTDGG 585
V SM +YF++F+DEFS+ V L+K +S ++ Q GK+I LR+D
Sbjct: 503 RVSSMS-YRYFVTFIDEFSQCTRVFLMKERSEILSFLTSVN-KIKTQFGKTIKILRSDNA 676
Query: 586 GEYTIKVFEKFCEENGVIH 604
EY V F G++H
Sbjct: 677 KEYFSSVISPFXSAQGILH 733
>BI425191 weakly similar to GP|14586969|gb| pol polyprotein {Citrus x
paradisi}, partial (7%)
Length = 423
Score = 55.8 bits (133), Expect = 5e-08
Identities = 27/79 (34%), Positives = 49/79 (61%)
Frame = +3
Query: 509 RSKEVLNVVYFDVNGPLEVPSMGRIKYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKFF 568
RS ++L +++ D+ P +V S G+ +YFI+F+D++S +V L+ K A D+ +
Sbjct: 87 RSTQLLEIMHTDICRPFDVNSFGKERYFITFIDDYSHYGYVYLLHEKFQAVDVLEIHLNE 266
Query: 569 VEKQSGKSITSLRTDGGGE 587
VE+Q + + +R+D GGE
Sbjct: 267 VERQLDRKVKVVRSDRGGE 323
>CO981347
Length = 624
Score = 35.4 bits (80), Expect(2) = 1e-05
Identities = 13/36 (36%), Positives = 24/36 (66%)
Frame = +3
Query: 524 PLEVPSMGRIKYFISFLDEFSKNIWVCLIKAKSGAF 559
P V + G YF++ +D+FS+ +W+ ++K KS +F
Sbjct: 3 PSRVKTHGGSSYFLTIIDDFSRRVWLYVLKNKSESF 110
Score = 32.0 bits (71), Expect(2) = 1e-05
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Frame = +2
Query: 561 IFQKFK---FFVEKQSGKSITSLRTDGGGEYTIKVFEKFCEENGV 602
IF KF+ + Q G + LRTD G E+ ++ F +FC + G+
Sbjct: 104 IF*KFRE*HTLIGNQLGTKLKVLRTDNGLEFVLEQFNEFCRKIGI 238
>BE330079
Length = 447
Score = 38.5 bits (88), Expect = 0.009
Identities = 20/58 (34%), Positives = 30/58 (51%)
Frame = -1
Query: 5 HLPTLESGNWESWSVVMKNLFGAKDLFNIVQNGYDELGENPTEMHRNAYKELKKKDCK 62
+LP + NW+ W V M+ LF D+ IV+ E G TE R +KE +++ K
Sbjct: 213 NLPIQDGKNWDQWVVQMRILFRF*DVLEIVETEIKEPGACSTESQRAEHKEAIRREGK 40
>CO981879
Length = 576
Score = 31.6 bits (70), Expect = 1.1
Identities = 17/44 (38%), Positives = 22/44 (49%)
Frame = -1
Query: 561 IFQKFKFFVEKQSGKSITSLRTDGGGEYTIKVFEKFCEENGVIH 604
IF+ F ++ Q I R+D G EY K K ENG+IH
Sbjct: 570 IFKTFFQMIQTQFQVKIKVFRSDNGREYFNKHLSKXXLENGIIH 439
>BU083646 weakly similar to GP|6642775|gb| gag-pol polyprotein {Vitis
vinifera}, partial (19%)
Length = 428
Score = 30.8 bits (68), Expect = 1.8
Identities = 14/32 (43%), Positives = 20/32 (61%)
Frame = +1
Query: 389 NLLSVGQLVQKGYSITMKDNSLKLFDKNQRLV 420
NLLSV QL++KGY + +D + + D R V
Sbjct: 274 NLLSVPQLLKKGYKVLFEDKNCMIKDSESREV 369
>BI702130 weakly similar to GP|4234854|gb| pol polyprotein {Zea mays},
partial (14%)
Length = 421
Score = 30.4 bits (67), Expect = 2.4
Identities = 17/44 (38%), Positives = 24/44 (53%), Gaps = 9/44 (20%)
Frame = -2
Query: 569 VEKQSGKSITSLRTDGGGEYTIKV---------FEKFCEENGVI 603
VEKQ GK I +R+D GGEY + F KF +E+ ++
Sbjct: 420 VEKQCGKQIKIVRSDRGGEYYGRYTEDGQAPGSFAKFLQEHEIV 289
>BF595216
Length = 421
Score = 29.3 bits (64), Expect = 5.3
Identities = 11/39 (28%), Positives = 22/39 (56%)
Frame = +2
Query: 518 YFDVNGPLEVPSMGRIKYFISFLDEFSKNIWVCLIKAKS 556
+ D+ P S Y+++F+D F++ W+ L++ KS
Sbjct: 5 FSDLCSPAPFVSSTGYSYYVTFVDAFTRYTWIFLLRHKS 121
>BI425121
Length = 412
Score = 28.9 bits (63), Expect = 6.9
Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 3/79 (3%)
Frame = +3
Query: 529 SMGRIKYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKFFVEKQSGKSI-TSLRTDGGGE 587
S+G KY +D++S+ WV + K + ++F+ K + L + E
Sbjct: 6 SLGCKKYEFLTVDDYSRYTWVYFLAHKH------ESLRYFIRGFKMKKVFVFLLLEVTME 167
Query: 588 YTIKVFE--KFCEENGVIH 604
++++ FCE NG+ H
Sbjct: 168 LSLRILS*NHFCERNGIFH 224
>BI425007 similar to SP|Q9BBS8|RPOC_ DNA-directed RNA polymerase beta' chain
(EC 2.7.7.6). {Lotus japonicus}, partial (9%)
Length = 428
Score = 28.9 bits (63), Expect = 6.9
Identities = 18/50 (36%), Positives = 26/50 (52%)
Frame = +3
Query: 534 KYFISFLDEFSKNIWVCLIKAKSGAFDIFQKFKFFVEKQSGKSITSLRTD 583
KY + +D+ + WV +K K+ A F F VEK+ K I LR+D
Sbjct: 282 KYVMVLVDDST*YTWVYFLKEKNEAIKKFVIFSNMVEKEYAK-IKCLRSD 428
>TC220086 homologue to UP|Q7XUF0 (Q7XUF0) OJ991113_30.19 protein, partial
(73%)
Length = 793
Score = 28.5 bits (62), Expect = 9.0
Identities = 12/21 (57%), Positives = 14/21 (66%), Gaps = 2/21 (9%)
Frame = -2
Query: 4 THLPTLESGNWES--WSVVMK 22
TH +E GNWES WS V+K
Sbjct: 444 THFKVVEKGNWESNFWSAVIK 382
>TC226635 similar to UP|Q84N37 (Q84N37) Potyvirus VPg interacting protein
(Fragment), complete
Length = 2039
Score = 28.5 bits (62), Expect = 9.0
Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Frame = -2
Query: 443 LSAIVNNEDSWLWHYMFGHL--NYISLNHLVDKEMI 476
+S + ++ SW WH MF HL IS+ + D+ M+
Sbjct: 781 ISQVQSSAGSWFWHAMFLHLL*PKISIREVCDRLML 674
Database: GMGI
Posted date: Oct 22, 2004 4:58 PM
Number of letters in database: 37,918,896
Number of sequences in database: 63,676
Lambda K H
0.349 0.155 0.516
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,448,351
Number of Sequences: 63676
Number of extensions: 311194
Number of successful extensions: 2684
Number of sequences better than 10.0: 36
Number of HSP's better than 10.0 without gapping: 1996
Number of HSP's successfully gapped in prelim test: 76
Number of HSP's that attempted gapping in prelim test: 663
Number of HSP's gapped (non-prelim): 2104
length of query: 604
length of database: 12,639,632
effective HSP length: 103
effective length of query: 501
effective length of database: 6,081,004
effective search space: 3046583004
effective search space used: 3046583004
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 14 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 38 (21.8 bits)
S2: 62 (28.5 bits)
Medicago: description of AC145061.22