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= TM0023.5
         (266 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...    51  2e-07
TC8562 similar to UP|O24322 (O24322) Cysteine proteinase precurs...    26  8.0

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

 Score = 51.2 bits (121), Expect = 2e-07
 Identities = 25/50 (50%), Positives = 31/50 (62%)
 Frame = +2

Query: 166 TSTGETPYKLTYGSDAMLPVEVENQSWRVITMNEEENNDNLIANLIMLPE 215
           +S  ETP+ LTYG+D MLPVE+ N SW     +EEEN  N+      LPE
Sbjct: 230 SSIKETPF*LTYGADTMLPVEISNFSW*TKARHEEENRMNMAVGWEKLPE 379


>TC8562 similar to UP|O24322 (O24322) Cysteine proteinase precursor ,
           partial (57%)
          Length = 776

 Score = 25.8 bits (55), Expect = 8.0
 Identities = 22/89 (24%), Positives = 38/89 (41%), Gaps = 6/89 (6%)
 Frame = +3

Query: 60  LAILKTARRLRPYFQSFQIKVKTDILLRQVWQKPDLSGAPPEQLTTMTAP------WPFA 113
           LAI K  RRLR    +  + +   +   Q+ +    + A P   + +  P      WP A
Sbjct: 390 LAISKMLRRLRSSLPTISLPISIGVRREQLLRSRIRARADPVGRSALLEPWKELIIWPLA 569

Query: 114 IWGADILGLFSVAKAQMKFIVVAVDYFTK 142
              A +   +S+  A M  I+  +D+ T+
Sbjct: 570 SLLASVSNNWSI--AIMSVILKILDHVTR 650


  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
   0.320    0.132    0.382 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,107,832
Number of Sequences: 28460
Number of extensions: 45748
Number of successful extensions: 209
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 209
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): 209
length of query: 266
length of database: 4,897,600
effective HSP length: 89
effective length of query: 177
effective length of database: 2,364,660
effective search space: 418544820
effective search space used: 418544820
frameshift window, decay const: 50,  0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)