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= SelTryp; hypothetical protein [Trypanosoma brucei TREU927]
PARTIALLY FROM XP_844760.1
         (259 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAXJ01002350.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    31   2.1  
gb|AAXJ01000008.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    31   2.8  
gb|AAXJ01000691.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    29   8.7  
gb|AAXJ01003719.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    29   9.5  

>gb|AAXJ01002350.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296295170,
            whole genome shotgun sequence
          Length = 6502

 Score = 31.2 bits (69), Expect = 2.1,   Method: Composition-based stats.
 Identities = 13/38 (34%), Positives = 23/38 (60%)
 Frame = +3

Query: 100  VRVEYCSGUGYRRHYEEVAESLLRSLPPELREQQKGKK 137
            +R++ CSG  +RR Y++   S L   PP  R +++ +K
Sbjct: 2394 LRIDSCSGRDWRRIYKQGGRSDLP*TPPFWRRKEESRK 2507


>gb|AAXJ01000008.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296784056,
            whole genome shotgun sequence
          Length = 143789

 Score = 30.8 bits (68), Expect = 2.8,   Method: Composition-based stats.
 Identities = 16/44 (36%), Positives = 24/44 (54%)
 Frame = +2

Query: 214  GAFEVYLNGSLIYSKLETGAVPTAETLADHILRQIISGTAAGTR 257
            GAFE+Y   +LI+S L+ G +P    +    +R +   T A TR
Sbjct: 1667 GAFEIYKGNTLIWSTLQAGRLPKLNDIVAVRIRSLSLRTHALTR 1798


>gb|AAXJ01000691.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296615540,
             whole genome shotgun sequence
          Length = 21094

 Score = 28.9 bits (63), Expect = 8.7,   Method: Composition-based stats.
 Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
 Frame = +2

Query: 133   QKGKKPFIKFVGVVYSVGAF-REFIGNILSTGF 164
             QKG    +K VG+ Y+V AF R  + N+L  GF
Sbjct: 16610 QKGLLSLLKQVGITYAVNAFVRYSVNNMLPEGF 16708


>gb|AAXJ01003719.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296647972,
            whole genome shotgun sequence
          Length = 4124

 Score = 28.9 bits (63), Expect = 9.5,   Method: Composition-based stats.
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 3/47 (6%)
 Frame = -3

Query: 150  GAFREFIGNILSTGFLASIAISFFAPFLRGALPP---HIAEWIEQHR 193
            G  R+F     +T +L S+A      FL   +PP   H  +W  QH+
Sbjct: 3078 GMIRQFDSRTTTTTYLLSVARVISTEFLSVLVPPTLSHYTKWATQHK 2938


  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
   0.322    0.136    0.388 

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: 20,180,397
Number of extensions: 258562
Number of successful extensions: 1041
Number of sequences better than 10.0: 6
Number of HSP's gapped: 1041
Number of HSP's successfully gapped: 6
Length of query: 259
Length of database: 28,681,891
Length adjustment: 104
Effective length of query: 155
Effective length of database: 26,238,827
Effective search space: 4067018185
Effective search space used: 4067018185
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 40 (20.0 bits)
