Alineamientos B.bigemina contra P.falciparum, E.huxleii, SelJ y SelP
Para P.Falciparum 1
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= SP1_P.falciparum
(116 letters)
Database: B_bigemina.contigs.fa
4396 sequences; 19,733,690 total letters
Searching..................................................done
***** No hits found ******
Database: B_bigemina.contigs.fa
Posted date: Feb 28, 2008 5:55 PM
Number of letters in database: 19,733,690
Number of sequences in database: 4396
Lambda K H
0.325 0.143 0.412
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4396
Number of Hits to DB: 1,848,722
Number of extensions: 18921
Number of successful extensions: 147
Number of sequences better than 1.0: 0
Number of HSP's gapped: 147
Number of HSP's successfully gapped: 0
Length of query: 116
Length of database: 6,577,896
Length adjustment: 83
Effective length of query: 33
Effective length of database: 6,213,028
Effective search space: 205029924
Effective search space used: 205029924
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 38 (19.2 bits)
Para P.Falciparum 2
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= SP2_P.falciparum
(229 letters)
Database: B_bigemina.contigs.fa
4396 sequences; 19,733,690 total letters
Searching..................................................done
***** No hits found ******
Database: B_bigemina.contigs.fa
Posted date: Feb 28, 2008 5:55 PM
Number of letters in database: 19,733,690
Number of sequences in database: 4396
Lambda K H
0.334 0.149 0.440
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4396
Number of Hits to DB: 4,358,424
Number of extensions: 59834
Number of successful extensions: 616
Number of sequences better than 1.0: 3
Number of HSP's gapped: 614
Number of HSP's successfully gapped: 3
Length of query: 229
Length of database: 6,577,896
Length adjustment: 93
Effective length of query: 136
Effective length of database: 6,169,068
Effective search space: 838993248
Effective search space used: 838993248
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 41 (20.4 bits)
Para P.Falciparum3
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= SP3_P.falciparum
(351 letters)
Database: B_bigemina.contigs.fa
4396 sequences; 19,733,690 total letters
Searching..................................................done
***** No hits found ******
Database: B_bigemina.contigs.fa
Posted date: Feb 28, 2008 5:55 PM
Number of letters in database: 19,733,690
Number of sequences in database: 4396
Lambda K H
0.322 0.138 0.397
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4396
Number of Hits to DB: 6,305,439
Number of extensions: 90866
Number of successful extensions: 629
Number of sequences better than 1.0: 12
Number of HSP's gapped: 616
Number of HSP's successfully gapped: 19
Length of query: 351
Length of database: 6,577,896
Length adjustment: 97
Effective length of query: 254
Effective length of database: 6,151,484
Effective search space: 1562476936
Effective search space used: 1562476936
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 42 (20.8 bits)
Para P.falciparum4
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= SP4_P.falciparum
(134 letters)
Database: B_bigemina.contigs.fa
4396 sequences; 19,733,690 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Contig3965 29 0.47
Contig4058 29 0.68
>Contig3965
Length = 7169
Score = 29.3 bits (64), Expect = 0.47, Method: Composition-based stats.
Identities = 29/94 (30%), Positives = 47/94 (50%), Gaps = 3/94 (3%)
Frame = -1
Query: 38 LKKNKKDAEVKRNNEISIKMKLSREKQLQELDKEM-MINKEKMKEQNIKKNEE--KKKDA 94
LK +A+++R +E+ K + KQ QE D+ + I EK K NEE K++D
Sbjct: 3344 LKMCVSNADLQRQDEVDEKWR----KQQQEYDERVERIRVEKEAADKQKDNEEMTKQEDE 3177
Query: 95 DQAKPKLGSKDNSSFNHLNDYSNYYRPSLKNRYN 128
D+ K ++ D ++ + L NYY + YN
Sbjct: 3176 DERKKRM---DIAAQHPLMPAPNYYYNQRPHYYN 3084
>Contig4058
Length = 16784
Score = 28.9 bits (63), Expect = 0.68, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 40/81 (49%)
Frame = +1
Query: 35 YKILKKNKKDAEVKRNNEISIKMKLSREKQLQELDKEMMINKEKMKEQNIKKNEEKKKDA 94
++IL+K+ + + R NE+ + Q QE+DK +NKEK + K E + +
Sbjct: 2041 WEILQKHCIELKRSRINELFSPQAFNHTGQSQEIDK---LNKEKFAK---KMAEWLRDNL 2202
Query: 95 DQAKPKLGSKDNSSFNHLNDY 115
D+ + LG + S + DY
Sbjct: 2203 DKVRRNLGKINTSYKGNTRDY 2265
Database: B_bigemina.contigs.fa
Posted date: Feb 28, 2008 5:55 PM
Number of letters in database: 19,733,690
Number of sequences in database: 4396
Lambda K H
0.315 0.131 0.349
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4396
Number of Hits to DB: 1,613,467
Number of extensions: 13886
Number of successful extensions: 282
Number of sequences better than 1.0: 18
Number of HSP's gapped: 267
Number of HSP's successfully gapped: 60
Length of query: 134
Length of database: 6,577,896
Length adjustment: 86
Effective length of query: 48
Effective length of database: 6,199,840
Effective search space: 297592320
Effective search space used: 297592320
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: 39 (19.6 bits)
Para E.Huxleii
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= dbj|BAD98262.1|
(223 letters)
Database: B_bigemina.contigs.fa
4396 sequences; 19,733,690 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Contig4175.0 68 4e-12
Contig4178 61 4e-10
Contig4169.0 45 2e-08
Contig3059.1 30 0.75
>Contig4175.0
Length = 80716
Score = 67.8 bits (164), Expect = 4e-12, Method: Composition-based stats.
Identities = 38/115 (33%), Positives = 58/115 (50%), Gaps = 7/115 (6%)
Frame = +2
Query: 39 FIKFLAPW*GHCKKMKPDWDSLASTFEDSKKVLIADVDCTTGGKPLCEKYGVRGYPTIKY 98
I F APW GHCK ++P+W +A+ + +V + VD T L ++YGV+GYPTI
Sbjct: 59639 LIMFFAPWCGHCKALEPEWRRMATI---ADRVTVGSVDATV-NTALAQRYGVKGYPTIVL 59806
Query: 99 FNPPDEEGED----YKGGRSLDELKKFAENE---LGPGCSVDLMDNCSEEQKGKL 146
P +G Y G R +++ FA+ +GP V+ D+ + G L
Sbjct: 59807 L-PQGPKGPSKAIPYNGARKAEDILAFAKRHYRNMGPPVHVNSFDDLKQRCSGPL 59968
>Contig4178
Length = 124204
Score = 60.8 bits (146), Expect = 4e-10, Method: Composition-based stats.
Identities = 39/129 (30%), Positives = 64/129 (49%), Gaps = 19/129 (14%)
Frame = +1
Query: 16 SAGAIELTPDNFDELV----------------LKSGKAAFIKFLAPW*GHCKKMKPDWDS 59
++ ++LT NF++L L + F+KF APW HC+ M P W+
Sbjct: 30886 ASSVVQLTDSNFEKLTQATTGSTTGAFTAGSGLHTAGPWFVKFYAPWCSHCRHMAPAWER 31065
Query: 60 LASTFEDSKKVLIADVDCTTGGKPLCEKYGVRGYPTIKYFNPPDEEGED--YKGG-RSLD 116
LA + V +AD+D T + +++G++GYPT+ ++G YKGG R+ +
Sbjct: 31066 LARELKGV--VNVADLDATRSPN-VAKRFGIKGYPTLILI----DKGRMYVYKGGERTTE 31224
Query: 117 ELKKFAENE 125
L FA +E
Sbjct: 31225 RLAAFATSE 31251
>Contig4169.0
Length = 9800
Score = 45.1 bits (105), Expect(2) = 2e-08, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 44/82 (53%), Gaps = 1/82 (1%)
Frame = -3
Query: 49 HCKKMKPDWDSLASTF-EDSKKVLIADVDCTTGGKPLCEKYGVRGYPTIKYFNPPDEEGE 107
HC+ + P+++ A E+ +V++A+++C G + +++GV GYPT+K+F
Sbjct: 6066 HCQALAPEYEKAAKQLAEEGSEVVLAEINCD-GAVGVAQEFGVEGYPTLKFFR--KGVAR 5896
Query: 108 DYKGGRSLDELKKFAENELGPG 129
Y G R D + + + L P
Sbjct: 5895 SYTGSRQADGIVSWCKTVLLPA 5830
Score = 30.0 bits (66), Expect(2) = 2e-08, Method: Composition-based stats.
Identities = 16/35 (45%), Positives = 18/35 (51%)
Frame = -1
Query: 13 AGASAGAIELTPDNFDELVLKSGKAAFIKFLAPW* 47
A AS +ELT N E L A +KF APW*
Sbjct: 6206 AYASGSVVELTEKNIHEF-LAEKDAVLVKFYAPW* 6105
>Contig3059.1
Length = 1850
Score = 30.0 bits (66), Expect = 0.75, Method: Composition-based stats.
Identities = 22/84 (26%), Positives = 41/84 (48%)
Frame = +3
Query: 129 GCSVDLMDNCSEEQKGKLKEYIDMAPEKRTEMLETLKKELADAESTHEALLKELQATYKE 188
G ++D + + KG L++ E+ T+ L+TLK+E+ S + + +L+ TYK+
Sbjct: 600 GTALDKVKDLDTALKGALRK----VKEEITKKLDTLKEEVKQLVSQAKGAIPDLEKTYKK 767
Query: 189 SMDKLEKLKEESAPKIKLLKAATP 212
+ + P I+ L A P
Sbjct: 768 KLLDISNAVNALKPSIERLGANFP 839
Database: B_bigemina.contigs.fa
Posted date: Feb 28, 2008 5:55 PM
Number of letters in database: 19,733,690
Number of sequences in database: 4396
Lambda K H
0.314 0.132 0.384
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4396
Number of Hits to DB: 4,758,755
Number of extensions: 66131
Number of successful extensions: 273
Number of sequences better than 1.0: 9
Number of HSP's gapped: 271
Number of HSP's successfully gapped: 10
Length of query: 223
Length of database: 6,577,896
Length adjustment: 93
Effective length of query: 130
Effective length of database: 6,169,068
Effective search space: 801978840
Effective search space used: 801978840
Neighboring words threshold: 13
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: 41 (20.4 bits)
Para SelJ:
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=
(267 letters)
Database: B_bigemina.contigs.fa
4396 sequences; 19,733,690 total letters
Searching..................................................done
***** No hits found ******
Database: B_bigemina.contigs.fa
Posted date: Feb 28, 2008 5:55 PM
Number of letters in database: 19,733,690
Number of sequences in database: 4396
Lambda K H
0.317 0.135 0.403
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4396
Number of Hits to DB: 6,261,790
Number of extensions: 100725
Number of successful extensions: 480
Number of sequences better than 1.0: 0
Number of HSP's gapped: 480
Number of HSP's successfully gapped: 0
Length of query: 267
Length of database: 6,577,896
Length adjustment: 95
Effective length of query: 172
Effective length of database: 6,160,276
Effective search space: 1059567472
Effective search space used: 1059567472
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: 41 (20.4 bits)
Para SelP
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= gi|148277018|ref|NP_001078955.1| selenoprotein P isoform 1
[Homo sapiens]
(381 letters)
Database: B_bigemina.contigs.fa
4396 sequences; 19,733,690 total letters
Searching..................................................done
***** No hits found ******
Database: B_bigemina.contigs.fa
Posted date: Feb 28, 2008 11:56 AM
Number of letters in database: 19,733,690
Number of sequences in database: 4396
Lambda K H
0.322 0.132 0.418
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4396
Number of Hits to DB: 12,451,166
Number of extensions: 276979
Number of successful extensions: 3845
Number of sequences better than 1.0: 41
Number of HSP's gapped: 3130
Number of HSP's successfully gapped: 103
Length of query: 381
Length of database: 6,577,896
Length adjustment: 98
Effective length of query: 283
Effective length of database: 6,147,088
Effective search space: 1739625904
Effective search space used: 1739625904
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 43 (21.2 bits)