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= SPP00000079_2.0 # Protein # Selenoprotein N (SelN) # Human
(Homo sapiens)
(590 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|397456876|gb|JH738624.1| Alligator mississippiensis unplaced ... 111 9e-23
gi|397456567|gb|JH738933.1| Alligator mississippiensis unplaced ... 37 2.7
gi|397457782|gb|JH737719.1| Alligator mississippiensis unplaced ... 37 3.6
gi|397460772|gb|JH734729.1| Alligator mississippiensis unplaced ... 36 4.6
gi|397463797|gb|JH731704.1| Alligator mississippiensis unplaced ... 35 7.9
>gi|397456876|gb|JH738624.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-12508, whole genome shotgun sequence
Length = 927267
Score = 111 bits (278), Expect = 9e-23
Identities = 52/74 (70%), Positives = 60/74 (81%), Gaps = 1/74 (1%)
Frame = +2
Query: 178 LGVSRLALSGLRNWTAAASPSAVFATRHFQPFLPPPGQ-ELGEPWWIIPSELSMFTGYLS 236
L +S +ALSGLRNWTA A+P V R F+ FLPP + ELG+PWWIIPSEL++FTGYLS
Sbjct: 639320 LQISHVALSGLRNWTAPAAPVNVMFARQFKAFLPPKNKLELGDPWWIIPSELNIFTGYLS 639499
Query: 237 NNRFYPPPPKGKEV 250
NNRFYPP PKGKEV
Sbjct: 639500 NNRFYPPAPKGKEV 639541
Score = 107 bits (268), Expect = 1e-21
Identities = 49/68 (72%), Positives = 61/68 (89%)
Frame = +3
Query: 365 MELEATGPSVPSVILDEDGSMIDSHLPSGEPLQFVFEEIKWQQELSWEEAARRLEVAMYP 424
MELE+ GPS+PSVI DE+G++IDS P+GEP+QFVFEEI WQQ+++WEEAA++LEVAMYP
Sbjct: 644715 MELESMGPSIPSVIHDENGNVIDSRDPTGEPIQFVFEEITWQQKITWEEAAQKLEVAMYP 644894
Query: 425 FKKVSYLP 432
FKKVS P
Sbjct: 644895 FKKVSKAP 644918
Score = 96.3 bits (238), Expect = 4e-18
Identities = 40/48 (83%), Positives = 47/48 (97%)
Frame = +1
Query: 290 FRIHAEFQLSEPPDFPFWFSPAQFTGHIILSKDATHVRDFRLFVPNHR 337
FRIHAEFQL+EPPDFPFWFSP QFTGH+ILSKD++HVR+F+LFVPN+R
Sbjct: 641206 FRIHAEFQLNEPPDFPFWFSPGQFTGHVILSKDSSHVREFKLFVPNNR 641349
Score = 94.7 bits (234), Expect = 1e-17
Identities = 42/55 (76%), Positives = 50/55 (90%)
Frame = +3
Query: 535 VHHINANYFLDITSVKPEEIESNLFSFSSTFEDPSTATYMQFLKEGLRRGLPLLQ 589
+HHINANYFLDITS+KPEE+ES++FSFS+ FEDPSTATY++FLKEGL R P LQ
Sbjct: 650736 IHHINANYFLDITSMKPEEVESSVFSFSTNFEDPSTATYLRFLKEGLHRAKPFLQ 650900
Score = 79.7 bits (195), Expect = 4e-13
Identities = 35/43 (81%), Positives = 40/43 (93%)
Frame = +3
Query: 249 EVIIHRLLSMFHPRPFVKTRFAPQGAVACLTAISDFYYTVMFR 291
++IIH+LLSMFHPRPFVKTRFAPQGAVAC+ A S+FYYTV FR
Sbjct: 639861 QIIIHKLLSMFHPRPFVKTRFAPQGAVACIQASSEFYYTVAFR 639989
Score = 72.8 bits (177), Expect = 4e-11
Identities = 34/40 (85%), Positives = 37/40 (92%)
Frame = +1
Query: 424 PFKKVSYLPFTEAFDRAKAENKLVHSILLWGALDDQSCXG 463
P +VSYLPFT+AF+RAKAENKLVHSILLWGALDDQSC G
Sbjct: 646357 PCFQVSYLPFTQAFERAKAENKLVHSILLWGALDDQSC*G 646476
Score = 65.5 bits (158), Expect = 7e-09
Identities = 36/64 (56%), Positives = 42/64 (65%), Gaps = 15/64 (23%)
Frame = +1
Query: 66 KTLGTDGLFLFSSLDTDGDMYISPEEFKPIAEKLTG-------SCSVT--------QTGV 110
K LG +G FLFSSLDT+ D+Y+SPEEFKPIAEKLTG SC+VT T +
Sbjct: 637609 KALGNEGFFLFSSLDTNNDLYLSPEEFKPIAEKLTGRYGP*KVSCAVTWMDSEDMNVTCM 637788
Query: 111 QWCS 114
QW S
Sbjct: 637789 QWLS 637800
Score = 62.4 bits (150), Expect = 6e-08
Identities = 28/35 (80%), Positives = 32/35 (91%)
Frame = +3
Query: 331 LFVPNHRSLNVDMEWLYGASESSNMEVDIGYIPQM 365
+ V + RSLNVDMEWLYGASESSNMEVDIGY+PQ+
Sbjct: 643572 VLVSSSRSLNVDMEWLYGASESSNMEVDIGYLPQV 643676
Score = 61.6 bits (148), Expect = 1e-07
Identities = 30/35 (85%), Positives = 32/35 (91%)
Frame = +1
Query: 460 SCXGSGRTLRETVLESSPILTLLNESFISTWSLVK 494
S GSGRTLRETVLESSPIL LLNESF+S+WSLVK
Sbjct: 646963 SLAGSGRTLRETVLESSPILALLNESFVSSWSLVK 647067
Score = 54.3 bits (129), Expect = 2e-05
Identities = 24/28 (85%), Positives = 27/28 (96%)
Frame = +1
Query: 508 HQKLAGLHLEKYSFPVEMMICLPNGTVV 535
++KLA LHLEKY+FPVEMMICLPNGTVV
Sbjct: 648475 YRKLAELHLEKYNFPVEMMICLPNGTVV 648558
Score = 45.8 bits (107), Expect = 0.006
Identities = 21/26 (80%), Positives = 24/26 (92%)
Frame = +2
Query: 156 LTIEARFQPLLPETMTKSKDGFLGVS 181
L++ A+FQPLL ETMTKSKDGFLGVS
Sbjct: 638615 LSVAAKFQPLLMETMTKSKDGFLGVS 638692
>gi|397456567|gb|JH738933.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-13043, whole genome shotgun sequence
Length = 1581717
Score = 37.0 bits (84), Expect = 2.7
Identities = 29/107 (27%), Positives = 45/107 (42%), Gaps = 9/107 (8%)
Frame = -3
Query: 213 PGQELGEPWWIIPSELSMFTGYLSNNRFYPPP--PKGKEVIIHRLLSMFHPRPFVKTRFA 270
PG G P W+ PS L TG + + P P P G ++ P V +
Sbjct: 816703 PGSLTGGPCWLFPSSL---TGVPAGSILVPSPVVPAGSSLV---------PSLVVPAGSS 816560
Query: 271 PQGAVACLTAISDFYYTVMFRIHAEF-------QLSEPPDFPFWFSP 310
P + L A+S F + +++R+ +F +LS+PP P P
Sbjct: 816559 PVPSPEFLPALSRFPHRLLYRLPCQFCRSSSAPRLSQPPPLPALLQP 816419
>gi|397457782|gb|JH737719.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-10969, whole genome shotgun sequence
Length = 324828
Score = 36.6 bits (83), Expect = 3.6
Identities = 22/61 (36%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Frame = -2
Query: 183 LALSGLRNWTAAASPSAV-FATRHFQPFLPPPGQELGEPWWIIPSELSMFTGYLSNNRFY 241
L+LSGLR W P A ++ F PFLPP G+ P +P S+ GY +
Sbjct: 97511 LSLSGLRLWRFPLLPLATGVRSQIFHPFLPPGGKRYAPP---VPQSFSLGVGYRAKGSSE 97341
Query: 242 P 242
P
Sbjct: 97340 P 97338
>gi|397460772|gb|JH734729.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-6030, whole genome shotgun sequence
Length = 411026
Score = 36.2 bits (82), Expect = 4.6
Identities = 19/51 (37%), Positives = 24/51 (47%)
Frame = +3
Query: 183 LALSGLRNWTAAASPSAVFATRHFQPFLPPPGQELGEPWWIIPSELSMFTG 233
LAL G WT +AV RH F PG G+ W ++P+E S G
Sbjct: 47706 LALQGAEIWTCTGRAAAVRRPRHGSLFPVEPGHVAGQCWSLLPAEPSCALG 47858
>gi|397463797|gb|JH731704.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-1142, whole genome shotgun sequence
Length = 130405
Score = 35.4 bits (80), Expect = 7.9
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 1/70 (1%)
Frame = +2
Query: 183 LALSGLRNWTAAASPS-AVFATRHFQPFLPPPGQELGEPWWIIPSELSMFTGYLSNNRFY 241
L ++ ++W +PS A+ ++ H QPF P P Q + P L FT LS
Sbjct: 31043 LTINYSQSWPFRLTPSSALLSSPHAQPFRPTPLQPYSLQSHLYPCPLRAFTPALSLATQR 31222
Query: 242 PPPPKGKEVI 251
PPP +G I
Sbjct: 31223 PPPRQGHTTI 31252
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 0.421
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,560,965,936
Number of Sequences: 14644
Number of extensions: 29401964
Number of successful extensions: 131376
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 803
Number of HSP's successfully gapped in prelim test: 1078
Number of HSP's that attempted gapping in prelim test: 119697
Number of HSP's gapped (non-prelim): 34873
length of query: 590
length of database: 724,747,747
effective HSP length: 135
effective length of query: 455
effective length of database: 722,770,807
effective search space: 328860717185
effective search space used: 328860717185
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: 79 (35.0 bits)