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= Os03g0586600 Os03g0586600|AK070943
(142 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os03g0586600 Similar to DNA-DIRECTED RNA POLYMERASES I, II,... 225 9e-60
Os07g0463100 DNA-directed RNA polymerase, 14 to 18 kDa subu... 209 5e-55
Os08g0426000 104 2e-23
>Os03g0586600 Similar to DNA-DIRECTED RNA POLYMERASES I, II, AND III 15 KD
POLYPEPTIDE(RPABC6)
Length = 142
Score = 225 bits (573), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 116/142 (81%), Positives = 116/142 (81%)
Query: 1 MADDDYNDMDMGYXXXXXXXXXXXXXXXXXXXXXXXXXXVVGAEAEDKEQEKTQRPRKTS 60
MADDDYNDMDMGY VVGAEAEDKEQEKTQRPRKTS
Sbjct: 1 MADDDYNDMDMGYEDEPPEPEIEEGAEEEPENNEDGPDEVVGAEAEDKEQEKTQRPRKTS 60
Query: 61 KYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRARKIPFTIRRYLPDGS 120
KYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRARKIPFTIRRYLPDGS
Sbjct: 61 KYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRARKIPFTIRRYLPDGS 120
Query: 121 YEDWGVDELIVEDSWKRQVGGG 142
YEDWGVDELIVEDSWKRQVGGG
Sbjct: 121 YEDWGVDELIVEDSWKRQVGGG 142
>Os07g0463100 DNA-directed RNA polymerase, 14 to 18 kDa subunit family protein
Length = 142
Score = 209 bits (532), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 112/143 (78%), Positives = 114/143 (79%), Gaps = 2/143 (1%)
Query: 1 MADDDYNDMDMGYXXXXXXXXXXXXXXXXXXXXXXXXXX-VVGAEAEDKEQEKTQRPRKT 59
MA+DDYNDMDMGY VVGAE +DKEQEKT RPRKT
Sbjct: 1 MAEDDYNDMDMGYEDEPPEPEIEEGAEEEPENNNEDAVDDVVGAE-DDKEQEKTARPRKT 59
Query: 60 SKYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRARKIPFTIRRYLPDG 119
SKYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRARKIPFTIRRYLPDG
Sbjct: 60 SKYMTKYERARILGTRALQISMNAPVMVELEGETDPLEIAMKELRARKIPFTIRRYLPDG 119
Query: 120 SYEDWGVDELIVEDSWKRQVGGG 142
SYEDWGVDELIVEDSWKRQVGGG
Sbjct: 120 SYEDWGVDELIVEDSWKRQVGGG 142
>Os08g0426000
Length = 249
Score = 104 bits (259), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 62/111 (55%), Positives = 66/111 (59%), Gaps = 14/111 (12%)
Query: 1 MADDDYNDMDMGYXXXXXXXXXXXXXXXXXXXXXXXXXX-------------VVGAEAED 47
MA+DDYNDMDMGY VVGAE +D
Sbjct: 1 MAEDDYNDMDMGYEDEPPEPEIEEELCGLFTFSELEGAEEEPENNNEDAVDDVVGAE-DD 59
Query: 48 KEQEKTQRPRKTSKYMTKYERARILGTRALQISMNAPVMVELEGETDPLEI 98
+EQEKT RP KTSKYMTKYERARIL TRALQISMNAPVMVELEG T PLE+
Sbjct: 60 REQEKTARPWKTSKYMTKYERARILSTRALQISMNAPVMVELEGGTYPLEV 110
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
0.314 0.134 0.385
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: 4,047,919
Number of extensions: 130540
Number of successful extensions: 258
Number of sequences better than 1.0e-10: 3
Number of HSP's gapped: 256
Number of HSP's successfully gapped: 3
Length of query: 142
Length of database: 17,035,801
Length adjustment: 91
Effective length of query: 51
Effective length of database: 12,284,327
Effective search space: 626500677
Effective search space used: 626500677
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 151 (62.8 bits)