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= Nova_selenoproteina
(244 letters)
Database: transcripts.fa
5157 sequences; 11,152,142 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Plasmodium_k_strain_H|PK4.chr03|PKH_031110|Annotation|Plasmodium... 437 e-124
Plasmodium_k_strain_H|PK4.chr05|PKH_051050|Annotation|Plasmodium... 31 0.27
Plasmodium_k_strain_H|PK4.chr09|PKH_094030|Annotation|Plasmodium... 28 1.8
Plasmodium_k_strain_H|PK4.chr09|PKH_092080|Annotation|Plasmodium... 28 2.4
Plasmodium_k_strain_H|PK4.chr06|PKH_061730|Annotation|Plasmodium... 28 2.5
Plasmodium_k_strain_H|chr04|PKH_040300|Annotation|Plasmodium_kno... 27 4.7
Plasmodium_k_strain_H|PK4.chr13|PKH_133600|Annotation|Plasmodium... 27 5.1
Plasmodium_k_strain_H|PK4.chr08|PKH_082780|Annotation|Plasmodium... 27 5.5
Plasmodium_k_strain_H|PK4.chr11.pseudo.embl|PKH_113370|Annotatio... 26 8.3
>Plasmodium_k_strain_H|PK4.chr03|PKH_031110|Annotation|Plasmodium_kn
owlesi_Sanger|(processed_transcript)hypothetical protein
Length = 672
Score = 437 bits (1125), Expect = e-124, Method: Composition-based stats.
Identities = 223/223 (100%), Positives = 223/223 (100%)
Frame = +1
Query: 1 MFCSATTLLQFYFLLLLHFYGNWSRRVVFCGNCHLGTCKMLCGQEGLPKKPFVGTNTNVR 60
MFCSATTLLQFYFLLLLHFYGNWSRRVVFCGNCHLGTCKMLCGQEGLPKKPFVGTNTNVR
Sbjct: 1 MFCSATTLLQFYFLLLLHFYGNWSRRVVFCGNCHLGTCKMLCGQEGLPKKPFVGTNTNVR 180
Query: 61 MYKYQAGLRMREYMDAHKDDLQNEAKDPPLIGRFIRSGKKSTPDLLNTILFRAYIFGYEK 120
MYKYQAGLRMREYMDAHKDDLQNEAKDPPLIGRFIRSGKKSTPDLLNTILFRAYIFGYEK
Sbjct: 181 MYKYQAGLRMREYMDAHKDDLQNEAKDPPLIGRFIRSGKKSTPDLLNTILFRAYIFGYEK 360
Query: 121 IRVGAFTEGSLVHVGILISSFCENVVVDTKSIYTCKQQGECATERVSISPKGACNNLRVI 180
IRVGAFTEGSLVHVGILISSFCENVVVDTKSIYTCKQQGECATERVSISPKGACNNLRVI
Sbjct: 361 IRVGAFTEGSLVHVGILISSFCENVVVDTKSIYTCKQQGECATERVSISPKGACNNLRVI 540
Query: 181 LYVCSLWHAHLRGAWTHTHQLYAHLRIDICASARMCIRPRAHV 223
LYVCSLWHAHLRGAWTHTHQLYAHLRIDICASARMCIRPRAHV
Sbjct: 541 LYVCSLWHAHLRGAWTHTHQLYAHLRIDICASARMCIRPRAHV 669
>Plasmodium_k_strain_H|PK4.chr05|PKH_051050|Annotation|Plasmodium_kn
owlesi_Sanger|(processed_transcript)kir protein
Length = 1806
Score = 30.8 bits (68), Expect = 0.27, Method: Composition-based stats.
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Frame = -3
Query: 11 FYFLLLLHFYGNWSRRVVFCGNCHLGTCKMLCGQEGLPK-KPFVGTNTNVRMYKYQAGLR 69
FY L + FY + +FC NC LG + +P+ P++G ++ R Y G+R
Sbjct: 493 FYILPYIFFYIRYLPHFLFCRNC-LGNQIIFSLDRNIPR*CPYIGGYSSARRAAYSVGVR 317
Query: 70 M 70
+
Sbjct: 316 I 314
>Plasmodium_k_strain_H|PK4.chr09|PKH_094030|Annotation|Plasmodium_kn
owlesi_Sanger|(processed_transcript)hypothetical
protein, conserved in Plasmodium species
Length = 903
Score = 28.1 bits (61), Expect = 1.8, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 7/51 (13%)
Frame = +1
Query: 47 LPKKPFVGTNTNVRMYKYQAGLRMRE-------YMDAHKDDLQNEAKDPPL 90
+P PF+ +N N+ YKY + E Y + KD +N+ D P
Sbjct: 220 IPINPFIDSNENLNKYKYGVEKKKAERYTGVQVYEEDDKDHKKNQPIDYPF 372
>Plasmodium_k_strain_H|PK4.chr09|PKH_092080|Annotation|Plasmodium_know
lesi_Sanger|(processed_transcript)hypothetical protein,
conserved in Plasmodium species
Length = 1884
Score = 27.7 bits (60), Expect = 2.4, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Frame = +1
Query: 124 GAFTEGSLVHVGILISSFCENVVVDTKSIYTCKQQGECATER----VSISPKGAC 174
G+F + SL H S C+N K C +QG C +++ S S G C
Sbjct: 1099 GSFPDSSLCH-----SKHCDNFRKGVKCNSNCTKQGSCCSDKHPGGNSTSEGGTC 1248
>Plasmodium_k_strain_H|PK4.chr06|PKH_061730|Annotation|Plasmodium_know
lesi_Sanger|(processed_transcript)hypothetical protein,
conserved in Plasmodium species
Length = 4560
Score = 27.7 bits (60), Expect = 2.5, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 27/53 (50%)
Frame = -3
Query: 166 VSISPKGACNNLRVILYVCSLWHAHLRGAWTHTHQLYAHLRIDICASARMCIR 218
VS+ P GA + R++L +CS H H+ + LYA+ + C R IR
Sbjct: 1387 VSLHP-GAYSPGRILLKICSYIHQHVH*GVIYLTHLYAYRKNRCCTLQRERIR 1232
>Plasmodium_k_strain_H|chr04|PKH_040300|Annotation|Plasmodium_knowlesi
_Sanger|(processed_transcript)ATP synthase F1, alpha
subunit, putative
Length = 1659
Score = 26.9 bits (58), Expect = 4.7, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 16/34 (47%)
Frame = +3
Query: 18 HFYGNWSRRVVFCGNCHLGTCKMLCGQEGLPKKP 51
+F GN + V L LCG EGLP+ P
Sbjct: 1386 NFNGNIKAKAVLPCEYQLSDLPHLCGHEGLPR*P 1487
>Plasmodium_k_strain_H|PK4.chr13|PKH_133600|Annotation|Plasmodium_kn
owlesi_Sanger|(processed_transcript)GTP binding protein,
putative
Length = 1728
Score = 26.6 bits (57), Expect = 5.1, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Frame = -2
Query: 1 MFCSATTLLQFYFLLLLHFYGNWSRRVVFC 30
M CS T+ YFL LHF ++RV+FC
Sbjct: 173 MQCSLFTVRLGYFLPSLHFMLLLTKRVLFC 84
>Plasmodium_k_strain_H|PK4.chr08|PKH_082780|Annotation|Plasmodium_know
lesi_Sanger|(processed_transcript)hypothetical protein,
conserved in Plasmodium species
Length = 3282
Score = 26.6 bits (57), Expect = 5.5, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 31/64 (48%)
Frame = -2
Query: 139 SSFCENVVVDTKSIYTCKQQGECATERVSISPKGACNNLRVILYVCSLWHAHLRGAWTHT 198
SS C N+ + KS+Y KQQ V P+G N+ ++ ++ S ++ W+ +
Sbjct: 2909 SSPCSNL--NKKSVYLDKQQSR*MQALVKPPPRGDSNSDKIDFFIESKENSSRWTRWSFS 2736
Query: 199 HQLY 202
++
Sbjct: 2735 FSIF 2724
>Plasmodium_k_strain_H|PK4.chr11.pseudo.embl|PKH_113370|Annotation|Pla
smodium_knowlesi_Sanger|(processed_transcript)hypothetica
l protein, conserved in Plasmodium species
Length = 2019
Score = 26.2 bits (56), Expect = 8.3, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Frame = +1
Query: 6 TTLLQFYFL-LLLHFYGNWSRRVVFCGN 32
T L FY + LLL++YGN+S R++ N
Sbjct: 1630 TMSLMFYLIHLLLNYYGNYSVRILCNAN 1713
Database: transcripts.fa
Posted date: Mar 13, 2008 9:37 AM
Number of letters in database: 11,152,142
Number of sequences in database: 5157
Lambda K H
0.329 0.140 0.461
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 5157
Number of Hits to DB: 4,572,490
Number of extensions: 90706
Number of successful extensions: 734
Number of sequences better than 10.0: 18
Number of HSP's gapped: 734
Number of HSP's successfully gapped: 18
Length of query: 244
Length of database: 3,717,380
Length adjustment: 89
Effective length of query: 155
Effective length of database: 3,258,407
Effective search space: 505053085
Effective search space used: 505053085
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 38 (19.2 bits)
