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= SPP00000106_2.0 # Protein # Selenoprotein T (SelT) # Human
(Homo sapiens)
         (195 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|397463993|gb|JH731508.1| Alligator mississippiensis unplaced ...    95   1e-18

>gi|397463993|gb|JH731508.1| Alligator mississippiensis unplaced genomic
              scaffold scaffold-851, whole genome shotgun sequence
          Length = 1392873

 Score = 95.1 bits (235), Expect = 1e-18
 Identities = 44/53 (83%), Positives = 48/53 (90%)
 Frame = -2

Query: 83     RHIASFLSVFKLVLIGLIIVGKDPFAFFGMQAPSIWQWGQENKVYACMMVFFL 135
              RHIASFLS+FKLVLIGLIIVGKDPFAFFGMQAPSIWQWGQENKV+  +   F+
Sbjct: 547238 RHIASFLSIFKLVLIGLIIVGKDPFAFFGMQAPSIWQWGQENKVHDLLFFSFV 547080



 Score = 86.3 bits (212), Expect = 6e-16
 Identities = 39/41 (95%), Positives = 41/41 (100%)
 Frame = -1

Query: 155    DVPVWSKLESGHLPSMQQLVQILDNEMKLNVHMDSIPHHRS 195
              DVPVWSKLESGHLPSMQQLVQILDNEMKLNVHM+S+PHHRS
Sbjct: 544389 DVPVWSKLESGHLPSMQQLVQILDNEMKLNVHMESMPHHRS 544267



 Score = 78.6 bits (192), Expect = 1e-13
 Identities = 36/39 (92%), Positives = 38/39 (97%)
 Frame = -2

Query: 47     VSXGYRRVFEEYMRVISQRYPDIRIEGENYLPQPIYRHI 85
              VS GYRRVFEEYMRVISQRYPDIRIEGENYLPQPIYR++
Sbjct: 548285 VS*GYRRVFEEYMRVISQRYPDIRIEGENYLPQPIYRYV 548169



 Score = 63.2 bits (152), Expect = 6e-09
 Identities = 29/29 (100%), Positives = 29/29 (100%)
 Frame = -2

Query: 126    VYACMMVFFLSNMIENQCMSTGAFEITLN 154
              VYACMMVFFLSNMIENQCMSTGAFEITLN
Sbjct: 545123 VYACMMVFFLSNMIENQCMSTGAFEITLN 545037



 Score = 47.8 bits (112), Expect = 2e-04
 Identities = 24/40 (60%), Positives = 32/40 (80%), Gaps = 1/40 (2%)
 Frame = -3

Query: 9      VAASAMVRSEASANLGGVPSKRLKMQYATGPLLKFQI-CV 47
              VAA+A + + A+   GG+P+K+L+M YATGPLLKFQI CV
Sbjct: 552298 VAAAAGLSAAAAGEPGGLPAKKLRMAYATGPLLKFQIWCV 552179


  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
   0.325    0.137    0.418 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 510,385,916
Number of Sequences: 14644
Number of extensions: 7609545
Number of successful extensions: 48623
Number of sequences better than 10.0: 1
Number of HSP's better than 10.0 without gapping: 705
Number of HSP's successfully gapped in prelim test: 462
Number of HSP's that attempted gapping in prelim test: 45285
Number of HSP's gapped (non-prelim): 9533
length of query: 195
length of database: 724,747,747
effective HSP length: 122
effective length of query: 73
effective length of database: 722,961,179
effective search space: 52776166067
effective search space used: 52776166067
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 72 (32.3 bits)