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= TM0189.9
         (214 letters)

Database: LJGI 
           28,460 sequences; 14,692,800 total letters

Searching..................................................done

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

TC11573 similar to UP|Q9M6N4 (Q9M6N4) Pol protein integrase regi...   160  2e-40
BF177840                                                               62  8e-11
AV427422                                                               54  2e-08
AU089582                                                               41  1e-06
BP055130                                                               38  0.001
BP054462                                                               29  0.71
BP034474                                                               28  1.6
BP041736                                                               27  2.7
AV771159                                                               27  2.7
BP046863                                                               26  4.6

>TC11573 similar to UP|Q9M6N4 (Q9M6N4) Pol protein integrase region
           (Fragment), partial (10%)
          Length = 572

 Score =  160 bits (405), Expect = 2e-40
 Identities = 77/124 (62%), Positives = 94/124 (75%)
 Frame = +2

Query: 3   DNGMQFASNQTKEFCEEMGIQRRFSSVEHPQTNGQADSANKVIQQGLKRPLSEAKGAWLD 62
           +NG+QF S QT++FC+ MGIQ RFSSV+HPQTNGQ ++ANKVI +G+KR L EA+G W+D
Sbjct: 8   ENGIQFTSKQTQDFCDGMGIQMRFSSVKHPQTNGQTEAANKVILKGIKRRLYEAEGRWID 187

Query: 63  ELPIVFWSYNTTQHSTTGKTPFRMTYGADVMLPVEIDNSSWRTTPKFEGENSSNMAVELD 122
           ELPIV WSYNT   S+  +TPF +TYGAD MLPVEI N SW T  + E EN  NMAV  +
Sbjct: 188 ELPIVLWSYNTMPQSSIKETPF*LTYGADTMLPVEISNFSW*TKARHEEENRMNMAVGWE 367

Query: 123 LLSE 126
            L E
Sbjct: 368 KLPE 379


>BF177840 
          Length = 410

 Score = 62.0 bits (149), Expect = 8e-11
 Identities = 31/98 (31%), Positives = 53/98 (53%)
 Frame = +2

Query: 1   VSDNGMQFASNQTKEFCEEMGIQRRFSSVEHPQTNGQADSANKVIQQGLKRPLSEAKGAW 60
           VSD   +F S+  +    ++G +  +S+  HPQT+GQ +  NK +   L+  L      W
Sbjct: 20  VSDRDTKFISHFWRTLWGKVGTKLLYSTTCHPQTDGQTEVVNKTLSTLLRSVLERNLKMW 199

Query: 61  LDELPIVFWSYNTTQHSTTGKTPFRMTYGADVMLPVEI 98
              LP + ++YN   HSTT  +PF + YG + + P+++
Sbjct: 200 ETWLPHIEFAYNRVVHSTTKHSPFEIVYGYNPLTPLDL 313


>AV427422 
          Length = 417

 Score = 54.3 bits (129), Expect = 2e-08
 Identities = 26/83 (31%), Positives = 47/83 (56%)
 Frame = +1

Query: 1   VSDNGMQFASNQTKEFCEEMGIQRRFSSVEHPQTNGQADSANKVIQQGLKRPLSEAKGAW 60
           VSD    F SN  KE  +  G + + S+  HP+++GQ +  N+ ++  L+  +++   +W
Sbjct: 169 VSDRDPLFMSNFWKELFKMQGTKLKMSTAYHPESDGQTEVVNRCLETYLRCFIADQPKSW 348

Query: 61  LDELPIVFWSYNTTQHSTTGKTP 83
              +P   + YNT+ H +TG+TP
Sbjct: 349 AHWVPWAEYWYNTSYHVSTGQTP 417


>AU089582 
          Length = 383

 Score = 41.2 bits (95), Expect(2) = 1e-06
 Identities = 17/58 (29%), Positives = 35/58 (60%)
 Frame = +2

Query: 1   VSDNGMQFASNQTKEFCEEMGIQRRFSSVEHPQTNGQADSANKVIQQGLKRPLSEAKG 58
           +SD G QF S+  + F   +G + + S+  HPQT+GQ++   ++++  L+  + + +G
Sbjct: 77  ISDRGAQFTSHFWRSFQTALGTRLKMSTAFHPQTDGQSERTIQILEDMLRACVXDLRG 250



 Score = 26.6 bits (57), Expect(2) = 1e-06
 Identities = 11/40 (27%), Positives = 20/40 (49%)
 Frame = +3

Query: 57  KGAWLDELPIVFWSYNTTQHSTTGKTPFRMTYGADVMLPV 96
           +G+W   L ++ ++YN +  S+    PF   YG     P+
Sbjct: 246 EGSWDQYLSLMEFAYNNSYRSSI*MAPFEALYGRRCRSPI 365


>BP055130 
          Length = 567

 Score = 38.1 bits (87), Expect = 0.001
 Identities = 22/64 (34%), Positives = 31/64 (48%)
 Frame = +2

Query: 1   VSDNGMQFASNQTKEFCEEMGIQRRFSSVEHPQTNGQADSANKVIQQGLKRPLSEAKGAW 60
           VSD    F S   K F +  G     SS  HPQT+GQ ++ NK ++  L+  + E    W
Sbjct: 323 VSDRDKAFTSAFWKHFFKLHGTTLNMSSSYHPQTDGQTEALNKCLELYLRCFVHETPRLW 502

Query: 61  LDEL 64
           +  L
Sbjct: 503 VSYL 514


>BP054462 
          Length = 422

 Score = 28.9 bits (63), Expect = 0.71
 Identities = 37/132 (28%), Positives = 57/132 (43%), Gaps = 8/132 (6%)
 Frame = +1

Query: 72  NTTQHSTTGKTPFRMTYGADVMLPVEIDNSSWRTTPKFEGENSSNMAVELDLLSETHNEA 131
           N+  + +   +PF+  YG +   PV +  ++     K    N   +  + +LLS+     
Sbjct: 1   NSNYNRSAKMSPFQALYGREP--PVLLQGTT--IPSKIAAVNDLQVGRD-ELLSDLRANL 165

Query: 132 RLKEAAMKQRAAAKYDTKVKPREMQEGDLVLKK-----RTGVT---GNKLSPIWEGPYRI 183
            LK   M +  A K   K +  + Q GD V  K     R  +      KLSP + GPY I
Sbjct: 166 -LKSQDMMRTYANK---KRRDVDYQIGDEVFLKLQPYRRRSLAKKMNEKLSPRYYGPYPI 333

Query: 184 LKALGRGAYHLE 195
           +  +G  AY LE
Sbjct: 334 VAKIGAVAYRLE 369


>BP034474 
          Length = 540

 Score = 27.7 bits (60), Expect = 1.6
 Identities = 11/26 (42%), Positives = 18/26 (68%)
 Frame = +3

Query: 66  IVFWSYNTTQHSTTGKTPFRMTYGAD 91
           ++ WS NTTQH+TT +  F + + A+
Sbjct: 324 VLSWSLNTTQHNTTQELLFIIIHEAE 401


>BP041736 
          Length = 525

 Score = 26.9 bits (58), Expect = 2.7
 Identities = 18/72 (25%), Positives = 30/72 (41%)
 Frame = -3

Query: 128 HNEARLKEAAMKQRAAAKYDTKVKPREMQEGDLVLKKRTGVTGNKLSPIWEGPYRILKAL 187
           H       + +K+ AA   + K+KP E Q G   +        +K   I   P   + A+
Sbjct: 484 HKTISAISSEVKELAAKAREGKLKPHEFQGGTFSISNLGMFPVDKFCAIINPPQACILAV 305

Query: 188 GRGAYHLESLDG 199
           G+G   +E + G
Sbjct: 304 GKGNKVVEPVIG 269


>AV771159 
          Length = 486

 Score = 26.9 bits (58), Expect = 2.7
 Identities = 16/53 (30%), Positives = 29/53 (54%)
 Frame = +2

Query: 24  RRFSSVEHPQTNGQADSANKVIQQGLKRPLSEAKGAWLDELPIVFWSYNTTQH 76
           + +  VE+PQ++G   + + +IQQ         + AW+DE  +V  S + +QH
Sbjct: 245 KAWDGVENPQSSGGIQT*SWLIQQ---------QQAWMDEQFLVLCSPSFSQH 376


>BP046863 
          Length = 580

 Score = 26.2 bits (56), Expect = 4.6
 Identities = 21/77 (27%), Positives = 38/77 (49%), Gaps = 6/77 (7%)
 Frame = +1

Query: 132 RLKEAAMKQRAAAKYDT------KVKPREMQEGDLVLKKRTGVTGNKLSPIWEGPYRILK 185
           +++  A K R    Y        K++P ++Q  +L  +K       KLSP + GP+++L+
Sbjct: 337 QMRAQANKHRRYVDYQVGNWVFLKLQPYKLQ--NLAQRKN-----QKLSPRFYGPFKVLE 495

Query: 186 ALGRGAYHLESLDGKRV 202
            + + AY L+     RV
Sbjct: 496 RVVQVAY*LDLXSESRV 546


  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    0.131    0.386 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,166,820
Number of Sequences: 28460
Number of extensions: 35027
Number of successful extensions: 134
Number of sequences better than 10.0: 20
Number of HSP's better than 10.0 without gapping: 134
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): 134
length of query: 214
length of database: 4,897,600
effective HSP length: 86
effective length of query: 128
effective length of database: 2,450,040
effective search space: 313605120
effective search space used: 313605120
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: 53 (25.0 bits)