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= sbp2 Plasmodium falciparum (seguint ref article)
         (608 letters)

Database: genome.fa 
           2809 sequences; 26,957,458 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Plasmodium_vivax_SaI-1|ctg_7187|2005-09-01|ds-DNA|Plasmodium_viv...   216   4e-56
Plasmodium_vivax_SaI-1|ctg_6977|2005-09-01|ds-DNA|Plasmodium_viv...    33   0.48 
Plasmodium_vivax_SaI-1|ctg_7179|2005-09-01|ds-DNA|Plasmodium_viv...    32   0.87 
Plasmodium_vivax_SaI-1|ctg_7164|2005-09-01|ds-DNA|Plasmodium_viv...    30   3.9  
Plasmodium_vivax_SaI-1|ctg_7061|2005-09-01|ds-DNA|Plasmodium_viv...    29   8.5  

>Plasmodium_vivax_SaI-1|ctg_7187|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR
          Length = 513347

 Score =  216 bits (550), Expect = 4e-56,   Method: Composition-based stats.
 Identities = 106/192 (55%), Positives = 148/192 (77%), Gaps = 1/192 (0%)
 Frame = -2

Query: 415    NNNNNNNNHNNNNNNNNGDNKNNNIIDVNHILKDEMLKNEKILNYIQVSRVEKKIYINDY 474
              N + ++ +H +  +   GD  +  +I      K+ +L++E I++YIQ +RVEKK +IN+Y
Sbjct: 321736 NVSTHSADHADQADRGRGDPPSRELI------KERILQSETIMSYIQTTRVEKKTFINEY 321575

Query: 475    VDHEITVKLNTMVKEFLKKISVSHEKLLLLK-KKKRYFLGLKECYKHICIDEPKIVFIAP 533
              VD  IT +LN MVK FL K+S S EKL L++ KKKRY+LGL+E Y+HICID+PK+V +AP
Sbjct: 321574 VDQVITEELNGMVKSFLGKLSKSQEKLHLMRTKKKRYYLGLRESYRHICIDDPKLVLLAP 321395

Query: 534    NIEPSLNNIFDDTLGKIIAKCKEKNIPIVFALSKNLLGKCINKSRQSIICIIDNDSYIKE 593
              NIEP  N +FD+ + KII KC+EK IP+V+ALSKNLLGKCINKSRQS+IC++DNDS+I+E
Sbjct: 321394 NIEPMTNGVFDEQVHKIICKCREKGIPLVYALSKNLLGKCINKSRQSVICVVDNDSFIRE 321215

Query: 594    CNDIINLANSLK 605
              C+ I+ LA+SL+
Sbjct: 321214 CDAIVRLASSLR 321179



 Score = 71.6 bits (174), Expect = 1e-12,   Method: Composition-based stats.
 Identities = 61/127 (48%), Positives = 93/127 (73%), Gaps = 1/127 (0%)
 Frame = -2

Query: 85     IKYYDDRKKEEKTYQTKNTNNN-IQFGNRLVRITFSSDKKKRKELIKKKKMNILMKQKKK 143
              +K   ++K E +  QT  T     Q G+R+V+ITF+SDKKKRKE  K+K+MN+L+ QK+K
Sbjct: 322513 LKSVANKKTEPRMNQTDITKQRYTQIGDRVVKITFTSDKKKRKEYKKRKQMNMLISQKRK 322334

Query: 144    KRKEFEEKKKLINKLTNILNVEKEKGNYYFLPKCLKKKKISKLKKIIILEKKIKNDIYQE 203
              K+KEFE+KKK++ K+ +++  E+EKGN YFLPK  ++KK +K K++I+LEK+ K  +Y +
Sbjct: 322333 KKKEFEKKKKMLRKMNHMIETEREKGNAYFLPKNFRQKKKTKRKRLILLEKEAKQSVYSD 322154

Query: 204    LLKQKEN 210
              LL   +N
Sbjct: 322153 LLGGIQN 322133


>Plasmodium_vivax_SaI-1|ctg_6977|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR
          Length = 1923364

 Score = 33.1 bits (74), Expect = 0.48,   Method: Composition-based stats.
 Identities = 13/37 (35%), Positives = 24/37 (64%)
 Frame = -1

Query: 400     NNNNNNNNNNNNNHNNNNNNNNNHNNNNNNNNGDNKN 436
               N+ + NN+ + +NH + NN+ + HN+ +  N+GD  N
Sbjct: 1720426 NHTDENNHTDEHNHTDENNHTDEHNHTDGLNHGDKAN 1720316



 Score = 31.2 bits (69), Expect = 2.1,   Method: Composition-based stats.
 Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
 Frame = -3

Query: 364     ICSVENFDKNNVV---NVKEK---KKKNSDTIERNEHNICNHNNNNNNNNNNNNNHNNNN 417
               IC  +  +K +V+    +K +   K KN D    + + + NH N   N+   N+ +  ++
Sbjct: 1650695 ICVQKKMEKGSVIVHDKIKRREIDKSKNKDLNLIDNYGMGNHKNGTCNDRKINSKNARSS 1650516

Query: 418     NNNNNHNNNNNNNNGD 433
                NN+   N N NN  D
Sbjct: 1650515 KNNSEFKNINENNEND 1650468



 Score = 30.8 bits (68), Expect = 2.9,   Method: Composition-based stats.
 Identities = 23/79 (29%), Positives = 41/79 (51%), Gaps = 7/79 (8%)
 Frame = -1

Query: 363     NICSVENFDKNNVVNVKEKKKKNSDTIER-------NEHNICNHNNNNNNNNNNNNNHNN 415
               N  S  NFD N     +++KK N  TI +       N H+    ++N  ++++N +N  N
Sbjct: 1519498 NQLSQTNFDDNENERTRKRKKANKRTIGKGKPGSGDNPHSPTAGSDNTESDDDNESN-VN 1519322

Query: 416     NNNNNNNHNNNNNNNNGDN 434
               + +  N+H  N+ N NG++
Sbjct: 1519321 SGSGRNSHEQNDANRNGNS 1519265



 Score = 30.0 bits (66), Expect = 4.3,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 3/62 (4%)
 Frame = +3

Query: 402    NNNNNNNNNNNHNNNNNNNNNHNNNNNNNNGDNKNN-NIID--VNHILKDEMLKNEKILN 458
              N+++     N  N++ ++  N  +  ++NNG  +NN  II   V++I+ DE++ N K  +
Sbjct: 299388 NSSSCTGEVNTDNDDTSSGLNLTDEESSNNGSTENNLQIIKTFVSNIIDDEIINNVKYFH 299567

Query: 459    YI 460
              YI
Sbjct: 299568 YI 299573


>Plasmodium_vivax_SaI-1|ctg_7179|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR
          Length = 1986252

 Score = 32.3 bits (72), Expect = 0.87,   Method: Composition-based stats.
 Identities = 14/35 (40%), Positives = 22/35 (62%)
 Frame = -2

Query: 161    ILNVEKEKGNYYFLPKCLKKKKISKLKKIIILEKK 195
              I++ + +KGNY+F  KC+ +  I K K +II   K
Sbjct: 175466 IIHFKAKKGNYFFSQKCMNRSYILKPKGVIIFFPK 175362



 Score = 30.0 bits (66), Expect = 4.9,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 32/48 (66%), Gaps = 1/48 (2%)
 Frame = -1

Query: 381     KKKKNSDTIERNEHNICNHNNNNNNN-NNNNNNHNNNNNNNNNHNNNN 427
               +KK   D+ ++N HN  +HN + +NN ++NN +HNN + + + H+ ++
Sbjct: 1844082 EKKHGEDSHDQNAHNNASHNQDAHNNVSHNNVSHNNVSLSEDAHDKHS 1843939



 Score = 29.6 bits (65), Expect = 6.3,   Method: Composition-based stats.
 Identities = 16/43 (37%), Positives = 22/43 (51%)
 Frame = -3

Query: 165    EKEKGNYYFLPKCLKKKKISKLKKIIILEKKIKNDIYQELLKQ 207
              +KE+G    LPK  KKK    LK I++L   I   I +  L +
Sbjct: 179095 KKERGKRTPLPKLAKKKAAEMLKSIVVLFGDINEKIIRSYLSR 178967



 Score = 28.9 bits (63), Expect = 9.2,   Method: Composition-based stats.
 Identities = 16/58 (27%), Positives = 33/58 (56%)
 Frame = -1

Query: 380     EKKKKNSDTIERNEHNICNHNNNNNNNNNNNNNHNNNNNNNNNHNNNNNNNNGDNKNN 437
               E +K  +   E+      +  N +NN ++N + HNN ++NN +HNN + + +  +K++
Sbjct: 1844112 EPQKGGAKMGEKKHGEDSHDQNAHNNASHNQDAHNNVSHNNVSHNNVSLSEDAHDKHS 1843939


>Plasmodium_vivax_SaI-1|ctg_7164|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR
          Length = 664090

 Score = 30.0 bits (66), Expect = 3.9,   Method: Composition-based stats.
 Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
 Frame = +2

Query: 390    ERNEHNICNHNNNNNN----NNNNNNNHNNNNNNNNNHNNNNNNNNGDNKNNNIIDVNHI 445
              E NEH     NN+  N    + N    H  N+ N  N  N  N  NG N  NN + +N +
Sbjct: 352700 EGNEHRSGKGNNHTYNSAAYSGNGKKGHGKNSKNGKNGKNRQNGQNGQNAQNNPLQLNKM 352879


>Plasmodium_vivax_SaI-1|ctg_7061|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR
          Length = 984623

 Score = 29.3 bits (64), Expect = 8.5,   Method: Composition-based stats.
 Identities = 14/43 (32%), Positives = 22/43 (51%)
 Frame = -3

Query: 401    NNNNNNNNNNNNHNNNNNNNNNHNNNNNNNNGDNKNNNIIDVN 443
              N  ++  N  +   N +  + N N  + N+NGD+ N N  DVN
Sbjct: 728913 NQGSDGANGGSGEVNRSEADVNRNVADVNHNGDDANRNEADVN 728785


  Database: genome.fa
    Posted date:  Mar 7, 2008 10:49 AM
  Number of letters in database: 26,957,458
  Number of sequences in database:  2809
  
Lambda     K      H
   0.311    0.130    0.359 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 2809
Number of Hits to DB: 22,786,188
Number of extensions: 548157
Number of successful extensions: 34857
Number of sequences better than 10.0: 98
Number of HSP's gapped: 19820
Number of HSP's successfully gapped: 3420
Length of query: 608
Length of database: 8,985,819
Length adjustment: 105
Effective length of query: 503
Effective length of database: 8,690,874
Effective search space: 4371509622
Effective search space used: 4371509622
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 (21.8 bits)
S2: 47 (22.7 bits)
# TBLASTN 2.2.17 [Aug-26-2007]
# Query: sbp2 Plasmodium falciparum (seguint ref article)
# Database: genome.fa
# Fields: Query id, Subject id, % identity, alignment length, mismatches, gap openings, q. start, q. end, s. start, s. end, e-value, bit score
sbp2	Plasmodium_vivax_SaI-1|ctg_7187|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	55.21	192	85	2	415	605	321736	321179	4e-56	 216
sbp2	Plasmodium_vivax_SaI-1|ctg_7187|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	48.03	127	65	1	85	210	322513	322133	1e-12	71.6
sbp2	Plasmodium_vivax_SaI-1|ctg_6977|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	35.14	37	24	0	400	436	1720426	1720316	0.48	33.1
sbp2	Plasmodium_vivax_SaI-1|ctg_6977|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	27.63	76	49	2	364	433	1650695	1650468	2.1	31.2
sbp2	Plasmodium_vivax_SaI-1|ctg_6977|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	29.11	79	49	2	363	434	1519498	1519265	2.9	30.8
sbp2	Plasmodium_vivax_SaI-1|ctg_6977|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	30.65	62	40	2	402	460	299388	299573	4.3	30.0
sbp2	Plasmodium_vivax_SaI-1|ctg_7179|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	40.00	35	21	0	161	195	175466	175362	0.87	32.3
sbp2	Plasmodium_vivax_SaI-1|ctg_7179|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	33.33	48	31	1	381	427	1844082	1843939	4.9	30.0
sbp2	Plasmodium_vivax_SaI-1|ctg_7179|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	37.21	43	27	0	165	207	179095	178967	6.3	29.6
sbp2	Plasmodium_vivax_SaI-1|ctg_7179|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	27.59	58	42	0	380	437	1844112	1843939	9.2	28.9
sbp2	Plasmodium_vivax_SaI-1|ctg_7164|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	33.33	60	36	1	390	445	352700	352879	3.9	30.0
sbp2	Plasmodium_vivax_SaI-1|ctg_7061|2005-09-01|ds-DNA|Plasmodium_vivax_TIGR	32.56	43	29	0	401	443	728913	728785	8.5	29.3