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= AC147000.15 - phase: 0 /pseudo
         (485 letters)

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

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

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

TC12832 weakly similar to UP|POLX_TOBAC (P10978) Retrovirus-rela...    37  0.006
AV410378                                                               33  0.10
BP075943                                                               32  0.23
AV424544                                                               30  0.88
CN824947                                                               28  3.3
TC16158                                                                27  9.7

>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 = 37.4 bits (85), Expect = 0.006
 Identities = 23/61 (37%), Positives = 33/61 (53%), Gaps = 5/61 (8%)
 Frame = +2

Query: 409 TMHKYVD-----YMILKIDDMLIACNIKEEFDKVKVML*IEFQMKDMRAAS*ILAKKILR 463
           T HK  D      ++L +DDML+    K+   ++K  L  EF MKD+  A+ IL  +I R
Sbjct: 56  TYHKRFDDNDFIILLLYVDDMLVVGPNKDRVQELKAQLAREFDMKDLGPANKILGMQIHR 235

Query: 464 D 464
           D
Sbjct: 236 D 238


>AV410378 
          Length = 358

 Score = 33.1 bits (74), Expect = 0.10
 Identities = 13/33 (39%), Positives = 21/33 (63%)
 Frame = +1

Query: 263 FVNASKSREWIASMKEELSSLHKNGTWLLVNKP 295
           +  A K   W  +M +E+ +L +N TW+LV+KP
Sbjct: 250 YSEAVKHECWRKAMDQEIEALERNHTWILVDKP 348


>BP075943 
          Length = 547

 Score = 32.0 bits (71), Expect = 0.23
 Identities = 18/50 (36%), Positives = 28/50 (56%)
 Frame = -3

Query: 417 MILKIDDMLIACNIKEEFDKVKVML*IEFQMKDMRAAS*ILAKKILRDIS 466
           ++L +DD+L+A N   E   VK  L  +F++KD+  A   L  +I R  S
Sbjct: 521 LLLYVDDVLLAGNDMHEIQLVKSSLHDQFRIKDLGEAKYFLGLEIARSTS 372


>AV424544 
          Length = 276

 Score = 30.0 bits (66), Expect = 0.88
 Identities = 18/55 (32%), Positives = 31/55 (55%)
 Frame = +3

Query: 417 MILKIDDMLIACNIKEEFDKVKVML*IEFQMKDMRAAS*ILAKKILRDISKGTFL 471
           +++ +DD+++A N   E   VK  L I+F++KD+      L  ++ R  S G FL
Sbjct: 99  ILVYVDDLILAGNDLNEIQCVKNKLDIQFRIKDLGTLKYFLGLEVARS-SCGLFL 260


>CN824947 
          Length = 738

 Score = 28.1 bits (61), Expect = 3.3
 Identities = 12/30 (40%), Positives = 18/30 (60%)
 Frame = +1

Query: 121 RCKRVQIWCMEKGET*VLINKDVVFKESEM 150
           RC R   W M+K +T  LIN D+  + +E+
Sbjct: 559 RCGRTSRWAMKKNKTYSLINNDLQNQNNEL 648


>TC16158 
          Length = 708

 Score = 26.6 bits (57), Expect = 9.7
 Identities = 12/29 (41%), Positives = 16/29 (54%), Gaps = 6/29 (20%)
 Frame = +3

Query: 82  WSCSK------P*KYESFWLCPLYAHIKR 104
           W CS       P K +SFWL  L+ HI++
Sbjct: 306 WCCSSCLCSHFPAKEDSFWLAHLFLHIQQ 392


  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
   0.361    0.161    0.572 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,634,824
Number of Sequences: 28460
Number of extensions: 92959
Number of successful extensions: 977
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 708
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 249
Number of HSP's gapped (non-prelim): 749
length of query: 485
length of database: 4,897,600
effective HSP length: 94
effective length of query: 391
effective length of database: 2,222,360
effective search space: 868942760
effective search space used: 868942760
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 (21.9 bits)
S2: 57 (26.6 bits)