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= SPP00000077_2.0 # Protein # Selenoprotein M (SelM) # Human
(Homo sapiens)
         (145 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|397458552|gb|JH736949.1| Alligator mississippiensis unplaced ...    70   1e-11
gi|397457881|gb|JH737620.1| Alligator mississippiensis unplaced ...    34   1.5  
gi|397458070|gb|JH737431.1| Alligator mississippiensis unplaced ...    32   5.6  
gi|397460639|gb|JH734862.1| Alligator mississippiensis unplaced ...    31   9.5  

>gi|397458552|gb|JH736949.1| Alligator mississippiensis unplaced genomic
              scaffold scaffold-9694, whole genome shotgun sequence
          Length = 210056

 Score = 70.5 bits (171), Expect = 1e-11
 Identities = 33/45 (73%), Positives = 38/45 (84%)
 Frame = -1

Query: 92     LERIPLSEMTREEINALVQELGFYRKAAPDAQVPPEYVWAPAKPP 136
              L+RIPLS+MTREEIN +VQELGFYRK + DA VP E+  APAKPP
Sbjct: 133553 LQRIPLSDMTREEINQMVQELGFYRKESQDAPVPEEFQLAPAKPP 133419



 Score = 54.3 bits (129), Expect = 1e-06
 Identities = 25/30 (83%), Positives = 26/30 (86%)
 Frame = -1

Query: 64     IPFYHNLVMKHLPGADPELVLLGRRYEELE 93
              +P  HNLVMKHLPGADPELVLL  RYEELE
Sbjct: 135668 VPSSHNLVMKHLPGADPELVLLNIRYEELE 135579


>gi|397457881|gb|JH737620.1| Alligator mississippiensis unplaced genomic
             scaffold scaffold-10807, whole genome shotgun sequence
          Length = 140723

 Score = 33.9 bits (76), Expect = 1.5
 Identities = 19/59 (32%), Positives = 31/59 (52%)
 Frame = -2

Query: 67    YHNLVMKHLPGADPELVLLGRRYEELERIPLSEMTREEINALVQELGFYRKAAPDAQVP 125
             + ++ +K   G  P+     R +E  E   L E++ E++  LVQ LGF++ A PD   P
Sbjct: 79588 FTSVFLKSNTGCSPDQ----RHWEHGEDNRLHEISPEQVRDLVQHLGFFKSAGPDNPHP 79424


>gi|397458070|gb|JH737431.1| Alligator mississippiensis unplaced genomic
              scaffold scaffold-10490, whole genome shotgun sequence
          Length = 168671

 Score = 32.0 bits (71), Expect = 5.6
 Identities = 14/41 (34%), Positives = 23/41 (56%)
 Frame = +1

Query: 64     IPFYHNLVMKHLPGADPELVLLGRRYEELERIPLSEMTREE 104
              + F HN+ M HL   D +L+ L R+Y   E++ + +   EE
Sbjct: 148201 VKFQHNINMNHLTRCDEQLIALDRKYHYQEKLGV*KYIYEE 148323


>gi|397460639|gb|JH734862.1| Alligator mississippiensis unplaced genomic
              scaffold scaffold-6258, whole genome shotgun sequence
          Length = 655522

 Score = 31.2 bits (69), Expect = 9.5
 Identities = 14/27 (51%), Positives = 17/27 (62%)
 Frame = -3

Query: 69     NLVMKHLPGADPELVLLGRRYEELERI 95
              NLV+ HLPG  P LVLL   Y  L+ +
Sbjct: 562040 NLVLLHLPGLSPSLVLLRHLYSVLQLV 561960


  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
   0.317    0.136    0.414 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 328,251,066
Number of Sequences: 14644
Number of extensions: 4080479
Number of successful extensions: 21686
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 575
Number of HSP's successfully gapped in prelim test: 181
Number of HSP's that attempted gapping in prelim test: 20292
Number of HSP's gapped (non-prelim): 3566
length of query: 145
length of database: 724,747,747
effective HSP length: 116
effective length of query: 29
effective length of database: 723,049,043
effective search space: 20968422247
effective search space used: 20968422247
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: 69 (31.2 bits)