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|341899378|gb|EGT55313.1| CBN-SECS-1 protein [Caenorhabditis
brenneri]
         (523 letters)

Database: genome.fa 
           799 sequences; 32,967,507 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

scaffold_49                                                           309   4e-84
scaffold_151                                                           29   7.9  

>scaffold_49 
          Length = 116333

 Score =  309 bits (791), Expect = 4e-84
 Identities = 175/446 (39%), Positives = 267/446 (59%), Gaps = 26/446 (5%)
 Frame = +2

Query: 74    QIPEEGWSEHTLDLFLSWLSSHDTNNRVDMIPVGAGEREGRVLTPLVQRLHSNLTHGIGR 133
             ++PE G+S+  ++L L+ +S  D+NN ++ I  G GEREGR+ + LV++ H   +HGIGR
Sbjct: 59207 RLPEIGYSDKVIELILNEISMMDSNNFIENI--GVGEREGRIYSSLVEKRHYGFSHGIGR 59380

Query: 134   SGNLLEIQPKALGSSMLACLSNEFXXXXXXXXXXXX--VKSCIVVPLCTGMSLSLCMTSW 191
             SG++ E QPKA GSS++  L +                  +C+++P+ TGM+LSL M + 
Sbjct: 59381 SGDITEQQPKAAGSSLIQKLVHYLVLDAMRIAGLESQAASTCLLLPMATGMTLSLAMMTL 59560

Query: 192   RRR-RPKAKYVIWLRIDQKSSLKSIYHAGFEPIIVEPIRDHDALITNVESV-NRIVEQRG 249
             +++ +  A+YVIW RIDQKS LKSI  AG  PI++E   + D + T+++++ ++I+E   
Sbjct: 59561 KQKSQSNARYVIWPRIDQKSCLKSIVTAGLIPIVIENKLEGDMIRTDLDAIKSKIIELGP 59740

Query: 250   EEILCVMTTTSCFAPRSPDNIEAISAICAAHDVPHLVNNAYGLQSEETIRKIAAAHECGR 309
               ILCV +TTSCFAPR+PD I  IS +C  H++ H++NNAYGLQ  + +  I+ + + GR
Sbjct: 59741 SNILCVFSTTSCFAPRAPDRIVEISQLCKEHNIGHIINNAYGLQCSKILHAISQSCKLGR 59920

Query: 310   VDAVVQSLDKNFQVPVGGALIAAFKQSHIQAIAQAYPGRASSIPSRDLVLTLLYQGQSGF 369
             VDA +QS DKNF VPVGGA+I+   +  I+ IA+ YPGRA+S P  D+ +TLL  G+SG+
Sbjct: 59921 VDAYIQSTDKNFMVPVGGAIISGPNKVFIEDIAKNYPGRANSSPILDVFITLLSMGKSGW 60100

Query: 370   LEPFNKQKQMFLKMRRKLNSFAENIGE-CVYDVPENEISLAMTLSTIPPTKQ-------- 420
                  ++K++ +  + +L   A    E  +  + EN+IS A +L      K         
Sbjct: 60101 SGLLKERKELLVYFQDQLGKLANEFNEKLLSTINENKISFAFSLKNFSSNKNEQQLESEL 60280

Query: 421   ------------SLFGSVLFARGITGARVVP-SNQSKTTIEGCEFINFGSHTAEQHGGYL 467
                         S+ GS LF+R  +GARV+  S   K  + G EF  +GSH       YL
Sbjct: 60281 NNNNNNNNDYSPSMLGSQLFSRSCSGARVIDLSKNKKAIVGGLEFNYYGSHIDGYPTSYL 60460

Query: 468   NVACSIGMTEHELEEFFTRLASSYAK 493
              VAC+IG+T+ E+++F  RL+    K
Sbjct: 60461 TVACAIGVTKSEIDKFIQRLSKLLKK 60538


>scaffold_151 
          Length = 67593

 Score = 29.3 bits (64), Expect = 7.9
 Identities = 11/25 (44%), Positives = 14/25 (56%)
 Frame = -2

Query: 261   CFAPRSPDNIEAISAICAAHDVPHL 285
             C  P   D ++ I  ICA H VPH+
Sbjct: 28700 CVNPTEKDIVQFIEPICAHHSVPHM 28626


  Database: genome.fa
    Posted date:  Jan 16, 2009 12:50 PM
  Number of letters in database: 32,967,507
  Number of sequences in database:  799
  
Lambda     K      H
   0.319    0.133    0.394 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,630,787
Number of Sequences: 799
Number of extensions: 157553
Number of successful extensions: 535
Number of sequences better than 10.0: 2
Number of HSP's better than 10.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 494
Number of HSP's gapped (non-prelim): 58
length of query: 523
length of database: 10,989,169
effective HSP length: 105
effective length of query: 418
effective length of database: 10,905,274
effective search space: 4558404532
effective search space used: 4558404532
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 (21.8 bits)
S2: 63 (28.9 bits)