BLASTP 2.2.23 [Feb-03-2010]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Reference for compositional score matrix adjustment:
Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala,
Aleksandr Morgulis, Alejandro A. Schäffer, and Yi-Kuo Yu (2005) "Protein database
searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= Os04g0440100 Os04g0440100|AK105415
(507 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os04g0440100 Nonsense-mediated decay UPF3 domain containing... 979 0.0
>Os04g0440100 Nonsense-mediated decay UPF3 domain containing protein
Length = 507
Score = 979 bits (2532), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 480/507 (94%), Positives = 480/507 (94%)
Query: 1 MAAARAHVKDPAHRTKVVLRRLPPAIAQQAVVEQVDARFGGRYDWSCFRPGNASQKNHRY 60
MAAARAHVKDPAHRTKVVLRRLPPAIAQQAVVEQVDARFGGRYDWSCFRPGNASQKNHRY
Sbjct: 1 MAAARAHVKDPAHRTKVVLRRLPPAIAQQAVVEQVDARFGGRYDWSCFRPGNASQKNHRY 60
Query: 61 SRLYLNFKGPEDVVEFAEVFNGHVFVNEKGAQFKALVEYAPSQQVXKSNTKKDARQGTIM 120
SRLYLNFKGPEDVVEFAEVFNGHVFVNEKGAQFKALVEYAPSQQV KSNTKKDARQGTIM
Sbjct: 61 SRLYLNFKGPEDVVEFAEVFNGHVFVNEKGAQFKALVEYAPSQQVXKSNTKKDARQGTIM 120
Query: 121 KDPEYLEFLESISKPAEHLPSAEIQLXXXXXXXXXXXXXPPVVTPLMVYVRQQRAAKSMA 180
KDPEYLEFLESISKPAEHLPSAEIQL PPVVTPLMVYVRQQRAAKSMA
Sbjct: 121 KDPEYLEFLESISKPAEHLPSAEIQLERKEAERAAAGKEPPVVTPLMVYVRQQRAAKSMA 180
Query: 181 QRSGSSRLSRKVAGVVTSSPSPSKRGSEKRRTSASTQYVLRENAKEKPTYILVPKRDEHA 240
QRSGSSRLSRKVAGVVTSSPSPSKRGSEKRRTSASTQYVLRENAKEKPTYILVPKRDEHA
Sbjct: 181 QRSGSSRLSRKVAGVVTSSPSPSKRGSEKRRTSASTQYVLRENAKEKPTYILVPKRDEHA 240
Query: 241 QREKDATSGGISGSAHVAENKKEKIVLLKGRARVDSNTSDVTSQQQSGTPMKNAAQSSSR 300
QREKDATSGGISGSAHVAENKKEKIVLLKGRARVDSNTSDVTSQQQSGTPMKNAAQSSSR
Sbjct: 241 QREKDATSGGISGSAHVAENKKEKIVLLKGRARVDSNTSDVTSQQQSGTPMKNAAQSSSR 300
Query: 301 QDPRLEGSGRIIKTILSNKEGRHVVTSQHDQEGHIITAEKRPPRIPNPRSVVKDQVVENA 360
QDPRLEGSGRIIKTILSNKEGRHVVTSQHDQEGHIITAEKRPPRIPNPRSVVKDQVVENA
Sbjct: 301 QDPRLEGSGRIIKTILSNKEGRHVVTSQHDQEGHIITAEKRPPRIPNPRSVVKDQVVENA 360
Query: 361 EKNHLDDKHSHLHGSGLISEKTERHARNRDRPDRGVWAPRRYDKXXXXXXXXXXXXXXPM 420
EKNHLDDKHSHLHGSGLISEKTERHARNRDRPDRGVWAPRRYDK PM
Sbjct: 361 EKNHLDDKHSHLHGSGLISEKTERHARNRDRPDRGVWAPRRYDKSASGGTHSSSSEFSPM 420
Query: 421 QQHSGENFCQQADGHGERKIDPRGHGGIRGGPVENGHRHANRRGPPRGLKEMEISASTSD 480
QQHSGENFCQQADGHGERKIDPRGHGGIRGGPVENGHRHANRRGPPRGLKEMEISASTSD
Sbjct: 421 QQHSGENFCQQADGHGERKIDPRGHGGIRGGPVENGHRHANRRGPPRGLKEMEISASTSD 480
Query: 481 GKPSKRASANYGAHERQVWVQKSSSAT 507
GKPSKRASANYGAHERQVWVQKSSSAT
Sbjct: 481 GKPSKRASANYGAHERQVWVQKSSSAT 507
Database: rap3
Posted date: Nov 19, 2010 6:03 PM
Number of letters in database: 17,035,801
Number of sequences in database: 52,214
Lambda K H
0.312 0.127 0.365
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 52214
Number of Hits to DB: 17,558,029
Number of extensions: 761785
Number of successful extensions: 2039
Number of sequences better than 1.0e-10: 1
Number of HSP's gapped: 2039
Number of HSP's successfully gapped: 1
Length of query: 507
Length of database: 17,035,801
Length adjustment: 105
Effective length of query: 402
Effective length of database: 11,553,331
Effective search space: 4644439062
Effective search space used: 4644439062
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 158 (65.5 bits)