TBLASTN 2.2.17 [Aug-26-2007]
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.
Reference for composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,
Eugene V. Koonin, and Stephen F. Altschul (2001),
"Improving the accuracy of PSI-BLAST protein database searches with
composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005.
Query= Secp43
(336 letters)
Database: genoma_PlasmoDB.fa
14 sequences; 23,462,190 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Plasmodium_knowlesi_strain_H|chr14|2007-02-22|ds-DNA|Plasmodium_... 62 5e-10
Plasmodium_knowlesi_strain_H|PK4.chr11.pseudo.embl|2007-02-22|ds... 53 2e-07
Plasmodium_knowlesi_strain_H|PK4.chr12.pseudo|2007-02-22|ds-DNA|... 37 0.022
Plasmodium_knowlesi_strain_H|PK4.chr05|2007-02-22|ds-DNA|Plasmod... 32 0.35
Plasmodium_knowlesi_strain_H|PK4.chr07|2007-02-22|ds-DNA|Plasmod... 32 0.64
Plasmodium_knowlesi_strain_H|PK4.chr13|2007-02-22|ds-DNA|Plasmod... 30 2.0
>Plasmodium_knowlesi_strain_H|chr14|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 3159096
Score = 61.6 bits (148), Expect = 5e-10, Method: Composition-based stats.
Identities = 50/167 (29%), Positives = 82/167 (49%)
Frame = +2
Query: 8 LWMGSLESYMTENFIIAAFRKMGEDPTTVRLMRNKYTGEPAGYCFVNFISDDHALDAMHK 67
L++G L +TE + F +G +++R+ R+ T + GY +VN+ + A A+
Sbjct: 1859753 LYVGDLNEDVTEAVLYEIFNTVGH-VSSIRVCRDSVTRKSLGYAYVNYHNLADAERALDT 1859929
Query: 68 LNGKPIPGTNPIVRFRLNSASNSYKLPGNEREFSVWVGDLSSDVDDYQLYKVFSSKFTSI 127
LN I G + + S GN ++V +L +D+ L+ FS F +I
Sbjct: 1859930 LNYTNIKGQPARLMWSHRDPSLRKSGAGN-----IFVKNLDKSIDNKALFDTFS-MFGNI 1860091
Query: 128 KTAKVILDSLGFSKGYGFVRFGIEDEQKSALYDMNGYIGLGTKPIKI 174
+ KV D G SK YGFV + E+ K A+ +NG I LG+K + +
Sbjct: 1860092 LSCKVATDEFGKSKSYGFVHYEDEESAKEAIEKVNG-IQLGSKNVYV 1860229
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 44/78 (56%), Gaps = 8/78 (10%)
Frame = +2
Query: 101 SVWVGDLSSDVDDYQLYKVFSSKFTSIKTAKVILDSLGFSKGYGFVRFGIEDEQKSALYD 160
++++ +L +DD L ++F + +I +AKV+ D SKG+GFV F ++E A+ +
Sbjct: 1861022 NLYIKNLDDAIDDQTLKELFEP-YGTITSAKVMRDDKEQSKGFGFVCFAQQEEANKAVTE 1861198
Query: 161 M-----NG---YIGLGTK 170
M NG Y+GL K
Sbjct: 1861199 MHLKIINGKPLYVGLAEK 1861252
Score = 30.4 bits (67), Expect = 1.3, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 31/66 (46%)
Frame = +2
Query: 8 LWMGSLESYMTENFIIAAFRKMGEDPTTVRLMRNKYTGEPAGYCFVNFISDDHALDAMHK 67
L++ + +TE + F GE + + NK +CF+N+ + A +AM
Sbjct: 1860284 LYVKNFPDSVTEAHLKQLFSPYGEITSMIVKTDNKNRK----FCFINYADSESAKNAMEN 1860451
Query: 68 LNGKPI 73
LNGK I
Sbjct: 1860452 LNGKKI 1860469
Score = 28.9 bits (63), Expect = 3.7, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 36/64 (56%)
Frame = -1
Query: 101 SVWVGDLSSDVDDYQLYKVFSSKFTSIKTAKVILDSLGFSKGYGFVRFGIEDEQKSALYD 160
++++ + S+ D L++ F F +I ++K+ D+ G + G+GFV + + A+
Sbjct: 2472324 NLFIFHIPSEWTDLDLFQHFCC-FGNIISSKIQRDNTGRNSGFGFVSYDNILSAQHAIQF 2472148
Query: 161 MNGY 164
MNGY
Sbjct: 2472147 MNGY 2472136
>Plasmodium_knowlesi_strain_H|PK4.chr11.pseudo.embl|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 2372884
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 55/181 (30%), Positives = 82/181 (45%), Gaps = 18/181 (9%)
Frame = -1
Query: 8 LWMGSLE----SYMTENFII-AAFRKMGEDPTTVRLMRNKYTGEPAGYCFVNFISDDHAL 62
LW+G L+ + EN+I+ F + ED V+L + K + Y F+ F + D A
Sbjct: 938332 LWVGDLDKIKDEVVDENYILHRMFYEFAEDIIKVKLCKEK-NSQRHSYAFIEFTNYDMAK 938156
Query: 63 DAMHKLNGKPIPGTNPIVRFRLNSASNSYKLPGNERE------------FSVWVGDLSSD 110
LNGK IPG I RF+LN A + N E +S++VG L
Sbjct: 938155 YCFDNLNGKWIPGR--IHRFKLNWAKYNITENVNTHEKNLDVELDDKGTYSIYVGGLPKG 937982
Query: 111 VDDYQLYKVFSSKFTSIKTAKVILD-SLGFSKGYGFVRFGIEDEQKSALYDMNGYIGLGT 169
++ +FS ++SI K+I + + Y F+ F DE AL +M+GY G
Sbjct: 937981 TTKEEIETLFSQFYSSICFVKMIKNVQKNQNTIYCFIHFFNYDECIKALKEMDGYDFRGC 937802
Query: 170 K 170
K
Sbjct: 937801 K 937799
Score = 35.4 bits (80), Expect = 0.048, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 29/48 (60%)
Frame = -1
Query: 101 SVWVGDLSSDVDDYQLYKVFSSKFTSIKTAKVILDSLGFSKGYGFVRF 148
++++G LS DV++ +L K F + IK K+I D KGYGF+ F
Sbjct: 152650 TIFIGRLSYDVNEKKLKKEFEV-YGKIKKVKIIYDKNFKPKGYGFIEF 152510
Score = 31.2 bits (69), Expect = 0.95, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 30/53 (56%)
Frame = +1
Query: 122 SKFTSIKTAKVILDSLGFSKGYGFVRFGIEDEQKSALYDMNGYIGLGTKPIKI 174
S + +I A + ++ G S+GYGF+ F + +A+ MNG+ G K +K+
Sbjct: 439414 SHYGNILGATIKRETNGKSRGYGFINFENQQSAINAVAGMNGF-NAGNKYLKV 439569
Score = 28.1 bits (61), Expect = 6.6, Method: Composition-based stats.
Identities = 23/62 (37%), Positives = 35/62 (56%)
Frame = -1
Query: 19 ENFIIAAFRKMGEDPTTVRLMRNKYTGEPAGYCFVNFISDDHALDAMHKLNGKPIPGTNP 78
E+ I A F+ +G T+ +L N+ + FV F +++HA A+H LNG I GTN
Sbjct: 2076907 EDDIKALFKNVGTT-TSYKLHYNEQ--KKVNTAFVEFTNEEHAKAALH-LNGTKI-GTNE 2076743
Query: 79 IV 80
I+
Sbjct: 2076742 II 2076737
>Plasmodium_knowlesi_strain_H|PK4.chr12.pseudo|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 3128370
Score = 36.6 bits (83), Expect = 0.022, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 33/64 (51%)
Frame = -2
Query: 36 VRLMRNKYTGEPAGYCFVNFISDDHALDAMHKLNGKPIPGTNPIVRFRLNSASNSYKLPG 95
V + R+ YTG+ G+ F+ F A++AM LNG I G V F A +S +
Sbjct: 1338806 VEIHRDPYTGKCKGFGFIQFFRASEAIEAMGVLNGMEIAGRELKVSF----AQDSKYILA 1338639
Query: 96 NERE 99
+E+E
Sbjct: 1338638 SEKE 1338627
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Frame = +3
Query: 102 VWVGDLSSDVDDYQLYKVFSSKFTSIKTAKVILD-SLGFSKGYGFVRFGIEDEQKSALYD 160
+++ +L D+ D Q+ + +F +K VI D S G +KGYGF + + A++
Sbjct: 1531956 LYIQNLPHDLGDVQIRDLLQ-QFGKLKGFNVIKDQSTGLNKGYGFFEYEDSNCTPIAMHA 1532132
Query: 161 MNGYI 165
+NG++
Sbjct: 1532133 LNGFV 1532147
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 31/154 (20%), Positives = 71/154 (46%), Gaps = 9/154 (5%)
Frame = -2
Query: 19 ENFIIAAFRKMGEDPTTVRLMRNKYTGEPAGYCFVNFISDDHALDAM----HKLNGKPIP 74
E I F ++ ++ ++++ +G+ G +V F + + + A+ + L +PI
Sbjct: 1339160 ERDIYEFFSEVAGKVRDIQCIKDQRSGKSKGVAYVEFYTQEAVVKALSANGYMLKNRPIK 1338981
Query: 75 -GTNPIVRFRLNSASNSYKLPGNEREFSVWVGDLSS---DVDDYQLYKVFSSKFTSIKTA 130
++ + R A+ + N+ +++G L ++ + +L ++F+ F I
Sbjct: 1338980 IQSSQAEKNRAAKAAKHQPIDPNDIPIKLYIGGLVGPLGNISEQELKQLFNP-FGEILEV 1338804
Query: 131 KVILDSL-GFSKGYGFVRFGIEDEQKSALYDMNG 163
++ D G KG+GF++F E A+ +NG
Sbjct: 1338803 EIHRDPYTGKCKGFGFIQFFRASEAIEAMGVLNG 1338702
>Plasmodium_knowlesi_strain_H|PK4.chr05|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 1324984
Score = 32.3 bits (72), Expect = 0.35, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 25/41 (60%)
Frame = +2
Query: 124 FTSIKTAKVILDSLGFSKGYGFVRFGIEDEQKSALYDMNGY 164
F + +A++ DS G +KGYGFV F + +A+ M+G+
Sbjct: 386726 FGYVLSARIQRDSSGRNKGYGFVSFNNPESAMNAIKGMHGF 386848
Score = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Frame = -2
Query: 118 KVFSSKFTSIKTAKVILDSLGFSKGYGFVRFGIEDEQKSAL 158
+ + S F I +++LDS G S+ +GFV F E L
Sbjct: 818877 RSYFSAFGEIDVVQIVLDSSGRSRCFGFVVFADESSVAKVL 818755
>Plasmodium_knowlesi_strain_H|PK4.chr07|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 1496036
Score = 31.6 bits (70), Expect = 0.64, Method: Composition-based stats.
Identities = 35/126 (27%), Positives = 54/126 (42%), Gaps = 3/126 (2%)
Frame = -1
Query: 31 EDPTTVRLMRNKYTGEPAGYCFVNFI---SDDHALDAMHKLNGKPIPGTNPIVRFRLNSA 87
ED VR + G GY FV F S L + H L+ K + VR +
Sbjct: 641987 EDGIIVR----EKEGRSKGYGFVTFKFVESVQKCLKSSHTLDNKELQ-----VRLVADPF 641835
Query: 88 SNSYKLPGNEREFSVWVGDLSSDVDDYQLYKVFSSKFTSIKTAKVILDSLGFSKGYGFVR 147
++ Y + ++V +LS + L +F K+ ++ +I D+ G SKGYGF+
Sbjct: 641834 TDHY-------QNKLFVRNLSQKTNVATLRGIFE-KYGKLEECVIIHDNEGKSKGYGFLT 641679
Query: 148 FGIEDE 153
F E
Sbjct: 641678 FSSPKE 641661
Score = 28.9 bits (63), Expect = 4.5, Method: Composition-based stats.
Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Frame = -1
Query: 113 DYQLYKVFSSKFTSIKTAKVILDSLGFSKGYGFVRFG-IEDEQK 155
D Q K F + F I+ ++ + G SKGYGFV F +E QK
Sbjct: 642029 DEQFLKYFET-FGEIEDGIIVREKEGRSKGYGFVTFKFVESVQK 641901
>Plasmodium_knowlesi_strain_H|PK4.chr13|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 2200295
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 33/65 (50%)
Frame = -1
Query: 7 QLWMGSLESYMTENFIIAAFRKMGEDPTTVRLMRNKYTGEPAGYCFVNFISDDHALDAMH 66
+L++GSL + E I F + G + T V +M+N G FVN+ + + A+
Sbjct: 1822571 KLFVGSLPKEIAEEQIRNLFNRYG-NVTEVYIMKNS-NGVSKRCAFVNYAYKEQGIFAIQ 1822398
Query: 67 KLNGK 71
LNGK
Sbjct: 1822397 NLNGK 1822383
Database: genoma_PlasmoDB.fa
Posted date: Mar 6, 2008 2:35 PM
Number of letters in database: 23,462,190
Number of sequences in database: 14
Lambda K H
0.315 0.134 0.398
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 14
Number of Hits to DB: 6,676,799
Number of extensions: 78137
Number of successful extensions: 308
Number of sequences better than 10.0: 7
Number of HSP's gapped: 306
Number of HSP's successfully gapped: 18
Length of query: 336
Length of database: 7,820,730
Length adjustment: 99
Effective length of query: 237
Effective length of database: 7,819,344
Effective search space: 1853184528
Effective search space used: 1853184528
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 60 (27.7 bits)
