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= SPP00000123_2.0 # Protein # Selenoprotein V (SelV) # Human
(Homo sapiens)
         (346 letters)

Database: /cursos/BI/genomes/project_2014/Alligator_mississippiensis/g
enome.fa 
           14,644 sequences; 2,174,243,242 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|397456032|gb|JH739468.1| Alligator mississippiensis unplaced ...    38   0.76 
gi|397463659|gb|JH731842.1| Alligator mississippiensis unplaced ...    35   4.9  

>gi|397456032|gb|JH739468.1| Alligator mississippiensis unplaced genomic
             scaffold scaffold-13950, whole genome shotgun sequence
          Length = 220046

 Score = 37.7 bits (86), Expect = 0.76
 Identities = 17/27 (62%), Positives = 17/27 (62%)
 Frame = -2

Query: 179   PSVSSEAGPAPGPLPTRTPLAANSPGP 205
             PS S  A PAP P P RTPL  NSP P
Sbjct: 96430 PSPSMAASPAPAPGPLRTPLTLNSPAP 96350


>gi|397463659|gb|JH731842.1| Alligator mississippiensis unplaced genomic
              scaffold scaffold-1353, whole genome shotgun sequence
          Length = 235689

 Score = 35.0 bits (79), Expect = 4.9
 Identities = 16/37 (43%), Positives = 22/37 (59%)
 Frame = -2

Query: 183    SEAGPAPGPLPTRTPLAANSPGPTLDFTFRADPSAIG 219
              +EAG  PGP P+R PL  + P P+       DP+A+G
Sbjct: 144581 AEAGSWPGPDPSRQPLPTSWPAPSRGSCRNPDPAALG 144471


  Database: /cursos/BI/genomes/project_2014/Alligator_mississippiensis
  /genome.fa
    Posted date:  Oct 18, 2013  5:53 PM
  Number of letters in database: 2,174,243,242
  Number of sequences in database:  14,644
  
Lambda     K      H
   0.316    0.133    0.380 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 492,221,114
Number of Sequences: 14644
Number of extensions: 6459644
Number of successful extensions: 91862
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 1868
Number of HSP's successfully gapped in prelim test: 762
Number of HSP's that attempted gapping in prelim test: 74848
Number of HSP's gapped (non-prelim): 35518
length of query: 346
length of database: 724,747,747
effective HSP length: 130
effective length of query: 216
effective length of database: 722,844,027
effective search space: 156134309832
effective search space used: 156134309832
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 (21.6 bits)
S2: 76 (33.9 bits)