TBLASTN 2.2.13 [Nov-27-2005]


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.

Query= gi|320165142|gb|EFW42041.1| sec tRNA synthase [Capsaspora
owczarzaki ATCC 30864]
         (470 letters)

Database: P.pallidum/genome.fa 
           42 sequences; 32,942,533 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|GL290991.1| Polysphondylium pallidum PN500 unplaced genomic s...   226   e-103

>gb|GL290991.1| Polysphondylium pallidum PN500 unplaced genomic scaffold PPL_scaffold9,
               whole genome shotgun sequence
          Length = 2264991

 Score =  226 bits (575), Expect(2) = e-103
 Identities = 108/203 (53%), Positives = 149/203 (73%), Gaps = 1/203 (0%)
 Frame = -2

Query: 41      RKWPELGWDEMSIELLLSDLAQMDSNNFPANIGAGEREARVYSDLVARRHFRMAHGIGRS 100
               RK P++GWD+  IE  +++++ MDSNNF  NIG GERE R+YS +VARRHF +AHGIGRS
Sbjct: 1075919 RKLPDVGWDDNVIEWFINEISMMDSNNFIENIGVGEREGRLYSQIVARRHFGLAHGIGRS 1075740

Query: 101     GDIAAIQPKAAGSSLIMKLVNIMCLDVIRLAGVH-AANACIALPLATGMAMVMTLLTLAQ 159
               GDI   QPKAAGSSLI KL N + LD +R+AG+  + +AC+ LP+ATGM + +TL+T+ Q
Sbjct: 1075739 GDINEQQPKAAGSSLIQKLTNYLVLDALRIAGLEKSIDACLVLPMATGMTIALTLMTMRQ 1075560

Query: 160     TRPPSARKVLWLRIDQKSCIKAITACGFEVVVVDNAIEGDEVRTDLSALQHQVNTVGKDN 219
               T+ P A  VLW RIDQKSC+K+I       +V++N +  D + T+L  ++  + ++G +N
Sbjct: 1075559 TK-PKATYVLWPRIDQKSCLKSIVTASLTPIVIENQLIDDVITTNLQTIEETIKSLGAEN 1075383

Query: 220     ILCIVSTTSCFAPRCPDRIVEIA 242
               ILC++STTSCFAPR PD+ V  A
Sbjct: 1075382 ILCVMSTTSCFAPRIPDK*VVAA 1075314



 Score =  169 bits (427), Expect(2) = e-103
 Identities = 99/229 (43%), Positives = 136/229 (59%), Gaps = 9/229 (3%)
 Frame = -3

Query: 237     RIVEIAKICATESIPHVINNAYGIQSSKITALIQDAHKAGRVDAFVQSSDKNLMVPVGGA 296
               RI+EI+++C    + HVINNAYG+Q +KIT  I  + + GRVD  VQS+DKN MVPVGGA
Sbjct: 1075258 RIIEISELCKKYDVGHVINNAYGLQCTKITHQISQSVRLGRVDYVVQSTDKNFMVPVGGA 1075079

Query: 297     LVAGHDRAFIKRIGEMYPGRASAAPSVDIFITLLSMGQQGFRSLLKQRKVVFEQLRAKLG 356
               +VA      I R+ + YPGRAS AP +D+FITLLSMG+ G+R LL +RK +      ++ 
Sbjct: 1075078 IVASPLAENIDRLAKNYPGRASGAPILDLFITLLSMGRAGYRRLLDERKQLLPYFIDEMS 1074899

Query: 357     AFAVSQG-ERLLETPHNPISLAITL-------STFGSD-ATRLGSFLFTRCVSGTRVVAA 407
                     G  R+L T  N IS  I +       S    D  + +GS LF R  SG RV+  
Sbjct: 1074898 KVVKEVGVGRILNTQANTISFGIAIDSNDVSKSVLAKDNISMIGSKLFMRSCSGARVIDV 1074719

Query: 408     DRAAATTSVGPVSLSNFGAHHSAYHGAYLTAAAAIGMTEQEVDALIDRL 456
                ++    SVG +   N+G+H   Y  +YLT A AIG+T++++D    RL
Sbjct: 1074718 -QSGQKKSVGNIDFKNYGSHIDNYPTSYLTVACAIGITKEDIDLFSKRL 1074575


  Database: P.pallidum/genome.fa
    Posted date:  Feb 9, 2011  9:02 AM
  Number of letters in database: 32,942,533
  Number of sequences in database:  42
  
Lambda     K      H
   0.321    0.133    0.383 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,251,971
Number of Sequences: 42
Number of extensions: 158306
Number of successful extensions: 560
Number of sequences better than 1.0e-05: 1
Number of HSP's better than  0.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 527
Number of HSP's gapped (non-prelim): 94
length of query: 470
length of database: 10,980,844
effective HSP length: 104
effective length of query: 366
effective length of database: 10,976,476
effective search space: 4017390216
effective search space used: 4017390216
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 114 (48.5 bits)