TBLASTN 2.2.13 [Nov-27-2005]


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= TR1
         (499 letters)

Database: genome.fa 
           572 sequences; 14,903,514 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAQX01000432.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    29   4.4  
gb|AAQX01000530.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    28   7.6  
gb|AAQX01000527.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    28   7.6  
gb|AAQX01000265.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    28   9.9  

>gb|AAQX01000432.1| Phytophthora ramorum strain Pr102 Pramorum_Cont432, whole genome
             shotgun sequence
          Length = 75042

 Score = 28.9 bits (63), Expect = 4.4
 Identities = 17/45 (37%), Positives = 25/45 (55%)
 Frame = -3

Query: 444   NAGEVTQGFAAALKCGLTKKQLDSTIGIHPVCAEVFTTLSVTKRS 488
             N+G  + G+A  +  G   K+LDSTI +     + FTT+S  K S
Sbjct: 22303 NSGLTSNGYAHQVSQGAHVKKLDSTIDV-----DAFTTVSPEKAS 22184



 Score = 28.5 bits (62), Expect = 5.8
 Identities = 14/39 (35%), Positives = 22/39 (56%)
 Frame = -3

Query: 214  LDVTVMVRSILLRGFDQDMANKIGEHMEEHGIKFIRQFV 252
            L V + + S+LLR  D D+A +   H + HG+  + Q V
Sbjct: 1456 LSVGLALHSLLLRHLDDDLALRAVRHTDLHGLHQVLQRV 1340


>gb|AAQX01000530.1| Phytophthora ramorum strain Pr102 Pramorum_Cont530, whole genome shotgun
              sequence
          Length = 254074

 Score = 28.1 bits (61), Expect = 7.6
 Identities = 12/31 (38%), Positives = 15/31 (48%)
 Frame = +3

Query: 381    GACGLSEEKAVEKFGEENIEVYHSYFWPLEW 411
              G C  S  +AVE  GE  + + H  FW   W
Sbjct: 244440 GQCAASRSQAVELAGELELRLVHL*FWTGAW 244532


>gb|AAQX01000527.1| Phytophthora ramorum strain Pr102 Pramorum_Cont527, whole genome
            shotgun sequence
          Length = 41025

 Score = 28.1 bits (61), Expect = 7.6
 Identities = 15/36 (41%), Positives = 19/36 (52%)
 Frame = +2

Query: 262  GTPGRLRVVAQSTNSEEIIEGEYNTVMLAIGRDACT 297
            GTPG     AQS+ S +    +YN V+   G D CT
Sbjct: 9464 GTPG-----AQSSRSMDAHTSKYNRVVARAGADCCT 9556


>gb|AAQX01000265.1| Phytophthora ramorum strain Pr102 Pramorum_Cont265, whole genome
             shotgun sequence
          Length = 198112

 Score = 27.7 bits (60), Expect = 9.9
 Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
 Frame = -2

Query: 345   VAIQAGRLLAQRLYAGSTVK-CDYENVPTTVFTPLEYGACGLS 386
             VA   GRLL         ++ CD EN+PT    P++ G  G+S
Sbjct: 81459 VANSPGRLLLSDSMGVDALRMCDLENLPTKNQQPIDLGVDGMS 81331


  Database: genome.fa
    Posted date:  Jan 19, 2010  5:07 PM
  Number of letters in database: 14,903,514
  Number of sequences in database:  572
  
Lambda     K      H
   0.319    0.138    0.417 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,726,777
Number of Sequences: 572
Number of extensions: 131107
Number of successful extensions: 596
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 544
Number of HSP's gapped (non-prelim): 145
length of query: 499
length of database: 4,967,838
effective HSP length: 99
effective length of query: 400
effective length of database: 4,911,210
effective search space: 1964484000
effective search space used: 1964484000
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (27.7 bits)
