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= gi|23452038|gb|AAN32904.1| methionine-S-sulfoxide reductase
MsrA1 [Chlamydomonas reinhardtii] 
         (160 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAQX01000186.1| Phytophthora ramorum strain Pr102 Pramorum_Co...   119   5e-28
gb|AAQX01000245.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    27   3.1  
gb|AAQX01000376.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    27   4.0  
gb|AAQX01000368.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    27   4.0  
gb|AAQX01000408.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    26   5.2  
gb|AAQX01000404.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    26   5.2  
gb|AAQX01000158.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    26   5.2  
gb|AAQX01000239.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    26   6.9  
gb|AAQX01000362.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    25   9.0  
gb|AAQX01000233.1| Phytophthora ramorum strain Pr102 Pramorum_Co...    25   9.0  

>gb|AAQX01000186.1| Phytophthora ramorum strain Pr102 Pramorum_Cont186, whole genome
             shotgun sequence
          Length = 28285

 Score =  119 bits (298), Expect = 5e-28
 Identities = 59/144 (40%), Positives = 88/144 (61%), Gaps = 7/144 (4%)
 Frame = +1

Query: 13    LATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAG-DGHTEAMRVWFDPA 71
             +ATFA G FW  + +F  VPGV+++ VGYT GS  +PTY  VC+G   H EA+R+ FD  
Sbjct: 10327 VATFAAGCFWGVQLAFERVPGVLESSVGYTQGSVDDPTYRQVCSGRTNHAEAIRIVFDEQ 10506

Query: 72    IISYEDLLKQFFREHDPTQKSK------CQYKSAVWYHSEAHGTALAAVMKELEGKYRVR 125
              +SY+ LL +F+  HDPT  ++       QY+S +++HSE    A  A  ++ +      
Sbjct: 10507 TVSYDALLSKFWAIHDPTTLNRQKNDRGTQYRSGIYFHSEEQRKAALASKEKYQKTLSQP 10686

Query: 126   LATTVDPAGDWWDAEEYHQKYIEK 149
             + T ++ A  +W AE+YHQKY+EK
Sbjct: 10687 IVTEIEEATRFWTAEDYHQKYLEK 10758



 Score =  110 bits (275), Expect = 2e-25
 Identities = 56/143 (39%), Positives = 85/143 (59%), Gaps = 7/143 (4%)
 Frame = +2

Query: 13   LATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAG-DGHTEAMRVWFDPA 71
            +A FA G FW  + +F  VPGV++T VGY+ G   NPTY++V  G   H E++++ F+ +
Sbjct: 9158 VAVFAAGCFWGVQRAFDRVPGVIETTVGYSQGKTDNPTYKTVVTGRTNHAESIKIVFNAS 9337

Query: 72   IISYEDLLKQFFREHDPTQKSK------CQYKSAVWYHSEAHGTALAAVMKELEGKYRVR 125
             +SY+DLLK F+  HDPT  ++       QY+S ++Y +E       A  +E +      
Sbjct: 9338 QVSYDDLLKVFWTIHDPTSLNRQEEDRGTQYRSGIYYENEEQHKLALASKEEHQKILSKP 9517

Query: 126  LATTVDPAGDWWDAEEYHQKYIE 148
            + T V+ A  +WDAEE HQKY+E
Sbjct: 9518 IVTEVEEAKQFWDAEEAHQKYLE 9586


>gb|AAQX01000245.1| Phytophthora ramorum strain Pr102 Pramorum_Cont245, whole genome
             shotgun sequence
          Length = 174567

 Score = 26.9 bits (58), Expect = 3.1
 Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 8/68 (11%)
 Frame = +3

Query: 60    HTEAMRVWFDPA------IISYEDLLKQFFREHDPTQKSKCQYKSAVWY--HSEAHGTAL 111
             HT A+    DP+      + +  DLL +     DP  K   +++S  W+  HS +HG   
Sbjct: 41037 HTAAIMNRLDPSWSDLGKLNAMVDLLVRDVANSDPADKFFARFRSFDWFRGHSYSHGVTP 41216

Query: 112   AAVMKELE 119
              A  K+ E
Sbjct: 41217 FADGKDQE 41240



 Score = 26.9 bits (58), Expect = 3.1
 Identities = 20/68 (29%), Positives = 31/68 (45%), Gaps = 8/68 (11%)
 Frame = -3

Query: 60    HTEAMRVWFDPA------IISYEDLLKQFFREHDPTQKSKCQYKSAVWY--HSEAHGTAL 111
             HT A+    DP+      + +  DLL +     DP  K   +++S  W+  HS +HG   
Sbjct: 27562 HTAAIMNRLDPSWSDLGKLNAMVDLLVRDVANSDPADKFFARFRSFDWFRGHSYSHGVTP 27383

Query: 112   AAVMKELE 119
              A  K+ E
Sbjct: 27382 FADGKDQE 27359


>gb|AAQX01000376.1| Phytophthora ramorum strain Pr102 Pramorum_Cont376, whole genome
             shotgun sequence
          Length = 57208

 Score = 26.6 bits (57), Expect = 4.0
 Identities = 11/27 (40%), Positives = 16/27 (59%)
 Frame = +2

Query: 29    ANVPGVVKTRVGYTGGSRPNPTYESVC 55
             AN+P VV+T +G + G +  P    VC
Sbjct: 39923 ANLPPVVRTALGESVGKKQGPNMNIVC 40003


>gb|AAQX01000368.1| Phytophthora ramorum strain Pr102 Pramorum_Cont368, whole genome
             shotgun sequence
          Length = 218554

 Score = 26.6 bits (57), Expect = 4.0
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
 Frame = -3

Query: 63    AMRVWFDPAIISYEDLLKQFFREHDPTQKSKC--QYKSAVWYHSEAH 107
             AMRVW  P + + + L+K+      P  K++C   ++S +W     H
Sbjct: 32021 AMRVWILPELTATDRLMKR-----SPRLKTQCISVHQSTIWLRISRH 31896



 Score = 25.4 bits (54), Expect = 9.0
 Identities = 11/33 (33%), Positives = 16/33 (48%)
 Frame = +3

Query: 93     KCQYKSAVWYHSEAHGTALAAVMKELEGKYRVR 125
              K Q  +  W H  AHG    +  + L+ +YR R
Sbjct: 205944 K*QVLAQPWTHLSAHGAVRPSAKRILQARYRFR 206042


>gb|AAQX01000408.1| Phytophthora ramorum strain Pr102 Pramorum_Cont408, whole genome
             shotgun sequence
          Length = 41112

 Score = 26.2 bits (56), Expect = 5.2
 Identities = 12/34 (35%), Positives = 15/34 (44%)
 Frame = -1

Query: 112   AAVMKELEGKYRVRLATTVDPAGDWWDAEEYHQK 145
             A +MKE E   + R    +D    WW  E Y  K
Sbjct: 37338 AWIMKEQEKNTKAR*NQQLDEPKSWWPGESYSAK 37237


>gb|AAQX01000404.1| Phytophthora ramorum strain Pr102 Pramorum_Cont404, whole genome
            shotgun sequence
          Length = 4063

 Score = 26.2 bits (56), Expect = 5.2
 Identities = 12/32 (37%), Positives = 14/32 (43%)
 Frame = +1

Query: 70   PAIISYEDLLKQFFREHDPTQKSKCQYKSAVW 101
            P + SY  L    FR H P  +S C     VW
Sbjct: 3349 PVVSSYVKLCPVLFRRHPPPARSGCMST**VW 3444


>gb|AAQX01000158.1| Phytophthora ramorum strain Pr102 Pramorum_Cont158, whole genome
             shotgun sequence
          Length = 86934

 Score = 26.2 bits (56), Expect = 5.2
 Identities = 11/21 (52%), Positives = 13/21 (61%)
 Frame = +3

Query: 39    VGYTGGSRPNPTYESVCAGDG 59
             V Y  G+R   TY  +CAGDG
Sbjct: 42087 VEYGSGARSAYTYPFICAGDG 42149


>gb|AAQX01000239.1| Phytophthora ramorum strain Pr102 Pramorum_Cont239, whole genome
             shotgun sequence
          Length = 88381

 Score = 25.8 bits (55), Expect = 6.9
 Identities = 26/110 (23%), Positives = 39/110 (35%), Gaps = 1/110 (0%)
 Frame = -3

Query: 2     ATNGNGASGAELATFALGUFWHPEASF-ANVPGVVKTRVGYTGGSRPNPTYESVCAGDGH 60
             AT  + A+GA       G  W   A+  A V GV  + VG    +     + +  A    
Sbjct: 45062 ATGASAAAGAAATGAGAGTCWTGAATTGAGVAGVTASSVGADSAT----AFAAAAAVSAA 44895

Query: 61    TEAMRVWFDPAIISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTA 110
               A +    P   S  ++             SKC    + WYH  + GT+
Sbjct: 44894 ASAAK----PRAYSEAEMFD--------VSSSKCTTSRSRWYHRISRGTS 44781



 Score = 25.4 bits (54), Expect = 9.0
 Identities = 14/31 (45%), Positives = 17/31 (54%)
 Frame = +1

Query: 100   VWYHSEAHGTALAAVMKELEGKYRVRLATTV 130
             VWYHS+  G ALA  +    G+   RL T V
Sbjct: 21532 VWYHSDRMGNALAKAL--AGGQTTRRLVTDV 21618


>gb|AAQX01000362.1| Phytophthora ramorum strain Pr102 Pramorum_Cont362, whole genome
           shotgun sequence
          Length = 28926

 Score = 25.4 bits (54), Expect = 9.0
 Identities = 9/20 (45%), Positives = 14/20 (70%)
 Frame = -3

Query: 62  EAMRVWFDPAIISYEDLLKQ 81
           E +  WF+PAI+ Y +L +Q
Sbjct: 706 ETILAWFEPAIVVYMELQQQ 647


>gb|AAQX01000233.1| Phytophthora ramorum strain Pr102 Pramorum_Cont233, whole genome
             shotgun sequence
          Length = 78383

 Score = 25.4 bits (54), Expect = 9.0
 Identities = 13/26 (50%), Positives = 14/26 (53%)
 Frame = +2

Query: 108   GTALAAVMKELEGKYRVRLATTVDPA 133
             GTA A    E  G+ R RLATT   A
Sbjct: 20321 GTAAAKACNEARGRVR*RLATTASAA 20398


  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
   0.317    0.131    0.429 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,300,585
Number of Sequences: 572
Number of extensions: 54532
Number of successful extensions: 284
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 64
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 197
Number of HSP's gapped (non-prelim): 131
length of query: 160
length of database: 4,967,838
effective HSP length: 87
effective length of query: 73
effective length of database: 4,918,074
effective search space: 359019402
effective search space used: 359019402
frameshift window, decay const: 40,  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: 54 (25.4 bits)
