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 
           697 sequences; 71,881,135 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

scaffold_7                                                            253   8e-69

>scaffold_7
          Length = 741107

 Score =  253 bits (645), Expect(2) = 8e-69
 Identities = 147/399 (36%), Positives = 233/399 (58%), Gaps = 9/399 (2%)
 Frame = -3

Query: 74     QIPEEGWSEHTLDLFLSWLSSHDTNNRVDMIPVGAGEREGRVLTPLVQRLHSNLTHGIGR 133
              Q+PEEG+ + T++  L+  ++ DTNN  +   VG GERE R+ + LV + +  + HGIGR
Sbjct: 284028 QLPEEGFDDLTIEYLLNIFATMDTNNFSNK--VGVGERESRIFSALV*KRNYYMGHGIGR 283855

Query: 134    SGNLLEIQPKALGSSMLACLSNEFXXXXXXXXXXXXVKSCIVVPLCTGMSLSLCMTSWRR 193
              SG+L+  QPKA GSS++A L+               +   ++VP+ TGM++SLC+ + + 
Sbjct: 283854 SGDLIASQPKAAGSSLIAKLTKHLAKDALKLSNYQ-INELLLVPVATGMAISLCLLALKS 283678

Query: 194    RRPKAKYVIWLRIDQKSSLKSIYHAGFEPIIVEPIRDHDALITNVESVNRIVEQRG-EEI 252
               +P AKYV+W RID K+ LK I  A   PI+++ +     + TN++ +   V + G + I
Sbjct: 283677 LKP*AKYVLWPRID*KTCLKCI*TANLIPIVIDSVIQDHVVTTNLDMLI*KVNEIGPDNI 283498

Query: 253    LCVMTTTSCFAPRSPDNIEAISAICAAHDVPHLVNNAYGLQSEETIRKIAAAHECGRVDA 312
              +CV++TTSCFAPR PDNI  I+ IC    + H+VNNAYGL   +    I      G V+ 
Sbjct: 283497 VCVLSTTSCFAPRIPDNIGEIAKICK*FSIYHVVNNAYGL*CNKIANSINLGLA*GTVNL 283318

Query: 313    VVQSLDKNFQVPVGGALIAAFKQSHIQAIAQAYPGRASSIPSRDLVLTLLYQGQSGFLEP 372
              +V S DKNF VPVGGALI    +  I+ I++ YPGRAS+ P  DL +T L  G+SG+L+ 
Sbjct: 283317 IVSSTDKNFMVPVGGALIYGNDKKLIK*ISELYPGRASAAPILDLFITFLSMGKSGYLQL 283138

Query: 373    FNKQKQMFLKMRRKLNSFAENIGECVYDVPENEISLAMTLSTI--------PPTKQSLFG 424
                ++ + +   + KL      I E + + P+N IS+ ++L  +             +  G
Sbjct: 283137 QKERVENYAYFKEKL*IMT*KISEQILNTPKNSISIGISL*NLKID*NN*EEKN*ITKLG 282958

Query: 425    SVLFARGITGARVVPSNQSKTTIEGCEFINFGSHTAEQH 463
              ++L+++ + G+RV+ +N+    + G EF N+GSH   ++
Sbjct: 282957 AILYSKKVMGSRVI-TNKKNKVVCGIEFKNYGSHCGNEY 282844



 Score = 28.5 bits (62), Expect(2) = 8e-69
 Identities = 10/28 (35%), Positives = 18/28 (64%)
 Frame = -1

Query: 466    YLNVACSIGMTEHELEEFFTRLASSYAK 493
              Y+ VAC+IG+T+ E++ F      +Y +
Sbjct: 282809 YITVACAIGLTKQEIDTFV*EFEKAYTQ 282726


  Database: genome.fa
    Posted date:  Feb 10, 2010 10:01 AM
  Number of letters in database: 71,881,135
  Number of sequences in database:  697
  
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: 31,466,984
Number of Sequences: 697
Number of extensions: 377863
Number of successful extensions: 1064
Number of sequences better than 10.0: 1
Number of HSP's better than 10.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1026
Number of HSP's gapped (non-prelim): 87
length of query: 523
length of database: 23,960,378
effective HSP length: 111
effective length of query: 412
effective length of database: 23,883,011
effective search space: 9839800532
effective search space used: 9839800532
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: 66 (30.0 bits)