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= SPP00000018_1.0 # Protein # Selenoprotein N (SelN) # Homo
sapiens # Complete
         (590 letters)

Database: N.gruberi/genome.fa 
           784 sequences; 40,964,085 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|GG738849.1| Naegleria gruberi genomic scaffold NAEGRscaffold_...    30   6.6  
gb|GG738904.1| Naegleria gruberi genomic scaffold NAEGRscaffold_...    30   8.6  
gb|GG738847.1| Naegleria gruberi genomic scaffold NAEGRscaffold_...    30   8.6  

>gb|GG738849.1| Naegleria gruberi genomic scaffold NAEGRscaffold_5, whole genome shotgun
              sequence
          Length = 850158

 Score = 30.0 bits (66), Expect = 6.6
 Identities = 14/38 (36%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
 Frame = -1

Query: 521    FPVEMMICLPNGTVVHHINANYFL-DITSVKPEEIESN 557
              FP+++ I LPN  ++  +  NYFL  + S+K + +E N
Sbjct: 808335 FPIKLPIILPNQLILQKVVHNYFLIFVQSLKRQPLEHN 808222


>gb|GG738904.1| Naegleria gruberi genomic scaffold NAEGRscaffold_60, whole genome shotgun
              sequence
          Length = 297120

 Score = 29.6 bits (65), Expect = 8.6
 Identities = 14/34 (41%), Positives = 19/34 (55%)
 Frame = -1

Query: 114    SHSSLQPQLPWLNUSSCLSLLRSTPAASCEEEEL 147
              +H S +P + W +  SCLS+L    A   EEE L
Sbjct: 185958 THHSEEPYMGWSSSYSCLSILLQLQAFLLEEEHL 185857


>gb|GG738847.1| Naegleria gruberi genomic scaffold NAEGRscaffold_3, whole genome shotgun
              sequence
          Length = 941567

 Score = 29.6 bits (65), Expect = 8.6
 Identities = 23/98 (23%), Positives = 45/98 (45%)
 Frame = -1

Query: 469    RETVLESSPILTLLNESFISTWSLVKELEELQNNQENSSHQKLAGLHLEKYSFPVEMMIC 528
              R+   E S     + ++F  + +L K  +   ++++  + Q+L     + + + +    C
Sbjct: 392477 RDNNFEQSETYQQIGQAFKESETLEKSGDVYGSSEKYFAGQRLLVKSGKTFEYLLNRQYC 392298

Query: 529    LPNGTVVHHINANYFLDITSVKPEEIESNLFSFSSTFE 566
              +  G V +  N N      +V PEEI  N+F+F S  E
Sbjct: 392297 ILEGPVENDKNDNL-----TVLPEEIILNIFTFLSESE 392199


  Database: N.gruberi/genome.fa
    Posted date:  Feb 9, 2011  9:02 AM
  Number of letters in database: 40,964,085
  Number of sequences in database:  784
  
Lambda     K      H
   0.318    0.134    0.408 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,532,408
Number of Sequences: 784
Number of extensions: 446554
Number of successful extensions: 2220
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 52
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1822
Number of HSP's gapped (non-prelim): 1013
length of query: 590
length of database: 13,654,695
effective HSP length: 108
effective length of query: 482
effective length of database: 13,570,023
effective search space: 6540751086
effective search space used: 6540751086
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: 65 (29.6 bits)