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= Os04g0603800 Os04g0603800|AK063616
(123 letters)
Database: rap3
52,214 sequences; 17,035,801 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Os04g0603800 Chromo domain containing protein 196 4e-51
Os04g0134833 136 3e-33
Os06g0638300 129 6e-31
Os06g0493000 RNA-directed DNA polymerase (Reverse transcrip... 119 4e-28
Os03g0417100 90 5e-19
Os06g0266100 Integrase, catalytic region domain containing ... 78 2e-15
Os04g0283700 Chromo domain containing protein 78 2e-15
Os04g0682600 Integrase, catalytic region domain containing ... 73 5e-14
Os03g0377400 Chromo domain containing protein 71 2e-13
>Os04g0603800 Chromo domain containing protein
Length = 123
Score = 196 bits (498), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 98/123 (79%), Positives = 98/123 (79%)
Query: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXX 60
AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVG
Sbjct: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGNLVVPLP 60
Query: 61 XXXXXDEDGNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFPH 120
DEDGNIKTE NEPVTQWLVHWENLSPEDATWEDSAFIQATFPH
Sbjct: 61 NLPLVDEDGNIKTEPVAVLARRVVPRRNEPVTQWLVHWENLSPEDATWEDSAFIQATFPH 120
Query: 121 FRP 123
FRP
Sbjct: 121 FRP 123
>Os04g0134833
Length = 310
Score = 136 bits (343), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 64/123 (52%), Positives = 80/123 (65%)
Query: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXX 60
AFG+RGSLKLR+KFYGPF++++++G+VAY LQLP +A IHPVFHVSQLKKH+G
Sbjct: 188 AFGIRGSLKLRSKFYGPFKVIEKVGQVAYRLQLPNDATIHPVFHVSQLKKHLGKRAIPMP 247
Query: 61 XXXXXDEDGNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFPH 120
+G IKT+ VTQWL+ WENL P DATWED+ I+ FP
Sbjct: 248 NLPSVGPEGQIKTQPTAVLQRRMMPRNGVAVTQWLILWENLGPTDATWEDADVIRNMFPT 307
Query: 121 FRP 123
F P
Sbjct: 308 FNP 310
>Os06g0638300
Length = 695
Score = 129 bits (323), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 62/123 (50%), Positives = 76/123 (61%)
Query: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXX 60
+ GL GSLKL +K+YGPFR+ +++G VAY L L E + IHPVFHVSQLKKH+G
Sbjct: 573 SLGLHGSLKLHSKYYGPFRVTEKVGAVAYRLLLQEGSLIHPVFHVSQLKKHLGPKAVPET 632
Query: 61 XXXXXDEDGNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFPH 120
D +GN+ TE NEPV QW VHW NL E ATWED++FI FP
Sbjct: 633 ALPLIDAEGNVLTEPVAVLERRMIPRNNEPVVQWKVHWANLPAEAATWEDASFIAKVFPA 692
Query: 121 FRP 123
F+P
Sbjct: 693 FKP 695
>Os06g0493000 RNA-directed DNA polymerase (Reverse transcriptase) domain
containing protein
Length = 866
Score = 119 bits (299), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 59/123 (47%), Positives = 71/123 (57%)
Query: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXX 60
+ GL SLKL +++YGPFR+L+RIG VAY L LP + IH VFHVSQLKKH+G
Sbjct: 744 SLGLHSSLKLHSRYYGPFRVLERIGSVAYKLLLPVTSQIHHVFHVSQLKKHLGSRAVPEQ 803
Query: 61 XXXXXDEDGNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFPH 120
D +G I + NEPV QW +HW NL ATWED+AFI FP
Sbjct: 804 GLPLIDAEGRILSTPLAVLDRRLIPRNNEPVVQWKIHWANLPESAATWEDAAFITKVFPS 863
Query: 121 FRP 123
F P
Sbjct: 864 FTP 866
>Os03g0417100
Length = 413
Score = 89.7 bits (221), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 38/53 (71%), Positives = 49/53 (92%)
Query: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVG 53
FG+RGSLKLR+KFYGPF++++++G+VAY LQLP +A IHPVFHVSQLKKH+G
Sbjct: 13 VFGIRGSLKLRSKFYGPFKVIEKVGQVAYRLQLPNDATIHPVFHVSQLKKHLG 65
>Os06g0266100 Integrase, catalytic region domain containing protein
Length = 399
Score = 77.8 bits (190), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 60/119 (50%), Gaps = 3/119 (2%)
Query: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXX 60
+ R + KL +++GPF+++++ G VAY LQLP + IHPVFHVSQLK G
Sbjct: 218 SVAARANHKLAFRYFGPFQVIQKFGSVAYKLQLPTTSSIHPVFHVSQLKAAKGFQGALHS 277
Query: 61 XXXXXDEDGNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFP 119
D+ N V+Q L+ W + + EDATWED ++A FP
Sbjct: 278 TLPSSDDAFQYPI---MLLDNRLIKKGNTTVSQVLIQWSDTAVEDATWEDLEDLRARFP 333
>Os04g0283700 Chromo domain containing protein
Length = 258
Score = 77.8 bits (190), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 45/119 (37%), Positives = 57/119 (47%), Gaps = 3/119 (2%)
Query: 1 AFGLRGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXX 60
+ +R + KL K++GPF+I +IG VAY LQLP + IHPVFHVSQLK G
Sbjct: 46 SVAVRANHKLAFKYFGPFQITAQIGTVAYKLQLPPTSSIHPVFHVSQLKSATGFTGHVQS 105
Query: 61 XXXXXDEDGNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFP 119
+ N ++Q LV W PEDATWED + A FP
Sbjct: 106 HLPSSISALQVPWR---ILDRRLAKKGNSTISQVLVQWSESPPEDATWEDYEELHARFP 161
>Os04g0682600 Integrase, catalytic region domain containing protein
Length = 395
Score = 72.8 bits (177), Expect = 5e-14, Method: Composition-based stats.
Identities = 42/115 (36%), Positives = 56/115 (48%)
Query: 5 RGSLKLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXXXXXX 64
R + KL K+YGPF++L+RIG VAY LQLP + IHPV HVSQLKK +
Sbjct: 228 RSNRKLSFKYYGPFQVLQRIGLVAYRLQLPAHSLIHPVVHVSQLKKALAPSEAVQPSLPV 287
Query: 65 XDEDGNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFP 119
+ D ++ + Q L+ W +S TWE +QA FP
Sbjct: 288 LNPDAGHLAIPIKILDHRSIRRGSKMIKQVLIRWSGVSSSADTWESLDEMQAKFP 342
>Os03g0377400 Chromo domain containing protein
Length = 257
Score = 71.2 bits (173), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 42/111 (37%), Positives = 52/111 (46%)
Query: 9 KLRAKFYGPFRILKRIGKVAYHLQLPEEAGIHPVFHVSQLKKHVGXXXXXXXXXXXXDED 68
KL KF+GPF IL++IG+ AY LQLP+ + IHPVFHVSQLK HV
Sbjct: 125 KLAFKFFGPFEILEKIGQSAYRLQLPDSSLIHPVFHVSQLKAHVPDHTPVFTSLPHPVVL 184
Query: 69 GNIKTEXXXXXXXXXXXXXNEPVTQWLVHWENLSPEDATWEDSAFIQATFP 119
N Q L+ W +L ATWED ++ FP
Sbjct: 185 DAADVWPEEILDRRLVKKGNATHVQVLIKWSSLPAHQATWEDYEVLKTRFP 235
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
0.321 0.139 0.447
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: 3,555,273
Number of extensions: 98649
Number of successful extensions: 183
Number of sequences better than 1.0e-10: 9
Number of HSP's gapped: 181
Number of HSP's successfully gapped: 9
Length of query: 123
Length of database: 17,035,801
Length adjustment: 88
Effective length of query: 35
Effective length of database: 12,440,969
Effective search space: 435433915
Effective search space used: 435433915
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 149 (62.0 bits)