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= SPP00000065_2.0 # Protein # Selenocysteine synthase (SecS) #
Human (Homo sapiens)
(501 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|397463559|gb|JH731942.1| Alligator mississippiensis unplaced ... 118 7e-25
gi|397461639|gb|JH733862.1| Alligator mississippiensis unplaced ... 35 8.3
>gi|397463559|gb|JH731942.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-1514, whole genome shotgun sequence
Length = 1885338
Score = 118 bits (295), Expect = 7e-25
Identities = 72/138 (52%), Positives = 80/138 (57%), Gaps = 42/138 (30%)
Frame = -2
Query: 250 IVNNAYGVQSSKCMHLIQQGARVGRIDAFVQSLDKNFMVPVGGAIIAGFNDSFIQEISKM 309
+ N+A S C GARVGRIDAF+QSLDKNFMVPVGGAIIAGFNDSFI+EISKM
Sbjct: 688973 VQNDAVRC*FSTCTCCYF*GARVGRIDAFIQSLDKNFMVPVGGAIIAGFNDSFIKEISKM 688794
Query: 310 YP------------------------------------------GRASASPSLDVLITLL 327
YP GRASASPSLDV ITLL
Sbjct: 688793 YPGKLFTSQLIFSK*I*TTCISVSLHI*ISFL*R*SVFLYIIILGRASASPSLDVFITLL 688614
Query: 328 SLGSNGYKKLLKERKEMF 345
SLG+NGY++LLK+RK F
Sbjct: 688613 SLGANGYRQLLKQRKVSF 688560
Score = 111 bits (278), Expect = 7e-23
Identities = 52/55 (94%), Positives = 53/55 (96%)
Frame = -3
Query: 129 AGVHTVANCFVVPMATGMSLTLCFLTLRHKRPKAKYIIWPRIDQKSCFKSMITAG 183
AGV TV +CFVVPMATGMSLTLCFLTLRHKRPKAKYIIWPRIDQKSCFKSMITAG
Sbjct: 704368 AGVRTVTSCFVVPMATGMSLTLCFLTLRHKRPKAKYIIWPRIDQKSCFKSMITAG 704204
Score = 108 bits (270), Expect = 6e-22
Identities = 49/52 (94%), Positives = 51/52 (98%)
Frame = -3
Query: 39 GKCPENGWDESTLELFLHELAIMDSNNFLGNCGVGEREGRVASALVARRHYR 90
GKCPE+GWDEST+ELFLHELAIMDSNNFLGNCGVGEREGRVAS LVARRHYR
Sbjct: 708685 GKCPEDGWDESTIELFLHELAIMDSNNFLGNCGVGEREGRVASGLVARRHYR 708530
Score = 102 bits (255), Expect = 3e-20
Identities = 50/75 (66%), Positives = 57/75 (76%)
Frame = -2
Query: 404 RVVPLGSMQTVSGYTFRGFMSHTNNYPCAYLNAASAIGMKMQDVDLFIKRLDRCLKAVRK 463
RVVP QTV+ YTF+GFMSH NNYPCAYLNAASAIGMK QDVD+F+KRL++CLK K
Sbjct: 666476 RVVPRNFQQTVNNYTFKGFMSHANNYPCAYLNAASAIGMKKQDVDMFLKRLNKCLKTFGK 666297
Query: 464 ERSKESDDNYDKTED 478
E +K D KT D
Sbjct: 666296 ETNKGKD--VSKTND 666258
Score = 94.7 bits (234), Expect = 9e-18
Identities = 42/56 (75%), Positives = 50/56 (89%)
Frame = -3
Query: 179 MITAGFEPVVIENVLEGDELRTDLKAVEAKVQELGPDCILCIHSTTSCFAPRVPDR 234
++ GFEPVVIEN+LE DELRTDL+ VEAK+QELG + +LC+HSTTSCFAPRVPDR
Sbjct: 698383 LVGLGFEPVVIENILENDELRTDLQGVEAKIQELGAENVLCVHSTTSCFAPRVPDR 698216
Score = 77.0 bits (188), Expect = 2e-12
Identities = 42/67 (62%), Positives = 51/67 (76%)
Frame = -2
Query: 89 YRFIHGIGRSGDISAVQPKAAGSSLLNKITNSLVLDIIKLAGVHTVANCFVVPMATGMSL 148
+R IHGIGRSGDISAVQPKAAGSSLLNK+TN +VLDIIKLAG N ++ + +S+
Sbjct: 704582 FRLIHGIGRSGDISAVQPKAAGSSLLNKLTNLIVLDIIKLAGRCETNNTSLL*VP--VSI 704409
Query: 149 TLCFLTL 155
CFL +
Sbjct: 704408 RKCFLLI 704388
Score = 75.9 bits (185), Expect = 4e-12
Identities = 35/35 (100%), Positives = 35/35 (100%)
Frame = -3
Query: 234 RLEELAVICANYDIPHIVNNAYGVQSSKCMHLIQQ 268
RLEELAVICANYDIPHIVNNAYGVQSSKCMHLIQQ
Sbjct: 692182 RLEELAVICANYDIPHIVNNAYGVQSSKCMHLIQQ 692078
Score = 56.6 bits (135), Expect = 3e-06
Identities = 28/34 (82%), Positives = 30/34 (88%)
Frame = -1
Query: 371 ISLAMTLKTLDEHRDKAVTQLGSMLFTRQVSGAR 404
+S AM+LK LDEH D AVTQLGSMLFTRQVSGAR
Sbjct: 668061 MSAAMSLKNLDEHSDTAVTQLGSMLFTRQVSGAR 667960
Score = 53.5 bits (127), Expect = 2e-05
Identities = 23/32 (71%), Positives = 30/32 (93%)
Frame = -2
Query: 342 KEMFSYLSNQIKKLSEAYNERLLHTPHNPISL 373
+EMFSYL++++KKL+E +NERLL TPHNPISL
Sbjct: 668765 QEMFSYLTSELKKLAEIHNERLLDTPHNPISL 668670
Score = 48.9 bits (115), Expect = 6e-04
Identities = 23/38 (60%), Positives = 29/38 (76%)
Frame = -1
Query: 1 MNRESFAAGERLVSPAYVRQGCEARRSHEHLIRLLLEK 38
MN E+F A ERLV+ AYVRQG + RR+HE +R LLE+
Sbjct: 715575 MNGENFGASERLVAAAYVRQGAQGRRAHELRLRALLEQ 715462
>gi|397461639|gb|JH733862.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-4580, whole genome shotgun sequence
Length = 941971
Score = 35.0 bits (79), Expect = 8.3
Identities = 19/48 (39%), Positives = 26/48 (54%)
Frame = +2
Query: 182 AGFEPVVIENVLEGDELRTDLKAVEAKVQELGPDCILCIHSTTSCFAP 229
AG+EP + L LRTDL+ V GP C+L +H+ T +AP
Sbjct: 809996 AGWEPKPAVHTLPAPALRTDLRGV-------GPLCLLGVHAATETWAP 810118
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
0.320 0.135 0.394
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,255,894,527
Number of Sequences: 14644
Number of extensions: 19070259
Number of successful extensions: 79084
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 427
Number of HSP's successfully gapped in prelim test: 383
Number of HSP's that attempted gapping in prelim test: 75546
Number of HSP's gapped (non-prelim): 11449
length of query: 501
length of database: 724,747,747
effective HSP length: 134
effective length of query: 367
effective length of database: 722,785,451
effective search space: 265262260517
effective search space used: 265262260517
frameshift window, decay const: 40, 0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 78 (34.7 bits)