TBLASTN 2.2.17 [Aug-26-2007]


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.

Reference for composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= SPP00000022_1.0 # Protein # Methionine-R-sufoxide reductase 2
(SelR2) # Homo sapiens # Complete
         (199 letters)

Database: genome.fa 
           23,491 sequences; 86,045,674 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAXJ01000478.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    40   4e-05
gb|AAXJ01002812.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    32   0.54 
gb|AAXJ01000952.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    30   2.4  
gb|AAXJ01011018.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    28   7.9  

>gb|AAXJ01000478.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296293918,
             whole genome shotgun sequence
          Length = 27715

 Score = 39.7 bits (91), Expect(2) = 4e-05,   Method: Composition-based stats.
 Identities = 21/60 (35%), Positives = 30/60 (50%)
 Frame = +3

Query: 115   FSSEKKYCSGTGWPSFSEAHGTSGSDESHTGILRRLDTSLGSARTEVVCKQCEAHLGHVF 174
             + S  K+  G GWP +      + ++ S T          GS R E+VC +C +HLGHVF
Sbjct: 22983 YDSSHKFDCGCGWPGYWTNIEGAVAERSETD---------GSGRVEIVCAKCGSHLGHVF 23135



 Score = 25.4 bits (54), Expect(2) = 4e-05,   Method: Composition-based stats.
 Identities = 9/18 (50%), Positives = 12/18 (66%)
 Frame = +1

Query: 180   PNGQRFCINSVALKFKPR 197
             P  +R C+N  +L FKPR
Sbjct: 23200 PTDERHCVNGTSLSFKPR 23253


>gb|AAXJ01002812.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296494682,
            whole genome shotgun sequence
          Length = 5498

 Score = 32.3 bits (72), Expect = 0.54,   Method: Composition-based stats.
 Identities = 19/49 (38%), Positives = 24/49 (48%)
 Frame = -3

Query: 126  GWPSFSEAHGTSGSDESHTGILRRLDTSLGSARTEVVCKQCEAHLGHVF 174
            GWP F  +        +   IL  L +   + RTEV C +C  HLGHVF
Sbjct: 5262 GWPGFYRS--------AEDAILS-LQSDEDNVRTEVKCGKCGIHLGHVF 5143


>gb|AAXJ01000952.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296409036,
            whole genome shotgun sequence
          Length = 16442

 Score = 30.0 bits (66), Expect = 2.4,   Method: Composition-based stats.
 Identities = 15/40 (37%), Positives = 22/40 (55%)
 Frame = +1

Query: 27   GLTLGTAPRRAVRGQAGGGGPGTGPGLGEAGSLATCELPL 66
            G+ L    RR VRG+A    P  G  + ++ +L TC+ PL
Sbjct: 2800 GVELSPPHRRGVRGKAFYQLPANGTRIQKSSTLVTCDFPL 2919


>gb|AAXJ01011018.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296110362,
            whole genome shotgun sequence
          Length = 1481

 Score = 28.5 bits (62), Expect = 7.9,   Method: Composition-based stats.
 Identities = 39/154 (25%), Positives = 58/154 (37%), Gaps = 17/154 (11%)
 Frame = -1

Query: 31   GTAPRRAVRGQAGGGGPGTGPGLGEAGSLATCELPLAKSEWQKKLT----------PEQF 80
            G  P  A   +  G  P  G  L E  S   C++      W   LT          P+  
Sbjct: 1031 GRTPLGAECMRGRGRTPAAGVPLIEMRSPKWCKIFTL*KRWNFMLTALDSQREVHLPKGS 852

Query: 81   YVTREKGTEPPFSGIYL--NNKEAGMYHCVCCDSPLFSSEKKYCSGTGWPSFSEAHGTSG 138
            +V+ E G  PP  G +   N++ A ++H +     L  S+  Y     +  +S    + G
Sbjct: 851  FVS*EVGHGPPQQGHHEIPNSELATLFHFIFAIVFLRKSDNHYL--LPYRLYSVIRSSRG 678

Query: 139  SDES-----HTGILRRLDTSLGSARTEVVCKQCE 167
            +        H G LRR+  S    R E+ C  CE
Sbjct: 677  A*HPLLFIFHFGTLRRIGGSYYRYRFELCCSNCE 576


  Database: genome.fa
    Posted date:  Jan 16, 2009 12:51 PM
  Number of letters in database: 86,045,674
  Number of sequences in database:  23,491
  
Lambda     K      H
   0.316    0.135    0.432 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 23491
Number of Hits to DB: 24,411,478
Number of extensions: 407898
Number of successful extensions: 2438
Number of sequences better than 10.0: 15
Number of HSP's gapped: 2437
Number of HSP's successfully gapped: 16
Length of query: 199
Length of database: 28,681,891
Length adjustment: 101
Effective length of query: 98
Effective length of database: 26,309,300
Effective search space: 2578311400
Effective search space used: 2578311400
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 39 (19.6 bits)
