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 
           218 sequences; 41,633,360 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

scaffold_38                                                            73   1e-32
scaffold_5                                                             32   1.5  
scaffold_39                                                            30   5.8  

>scaffold_38 
          Length = 375890

 Score = 72.8 bits (177), Expect(4) = 1e-32
 Identities = 54/169 (31%), Positives = 69/169 (40%), Gaps = 68/169 (40%)
 Frame = -2

Query: 269    NIEAISAICAAHDVPHLVNNAYGLQSEETIRKIA-------------------------- 302
              ++  + A+C    VPH+VNNAYGLQS + I  I                           
Sbjct: 202609 SVPGVGAVCKDLQVPHVVNNAYGLQSTKCIHLIETGG*FVPLWE*TLRTRNASTHARPFA 202430

Query: 303    ---AAHECGRVDAVVQSLDKNFQVPVGGALIAAFKQSHIQAIAQAYP------------- 346
                  A   GRVD VVQS DKN  VPVGG+++A+   + I A++Q YP             
Sbjct: 202429 PPDTAQRAGRVDFVVQSTDKNLMVPVGGSIVASSTPALITALSQTYPGQSQRILRGLG*P 202250

Query: 347    --------------------------GRASSIPSRDLVLTLLYQGQSGF 369
                                        GRASS P  D+ LTLL  GQ+GF
Sbjct: 202249 ATCPLWS*SVLIVLVDPCPLLLASISGRASSGPIVDVFLTLLSLGQTGF 202103



 Score = 60.5 bits (145), Expect(4) = 1e-32
 Identities = 30/57 (52%), Positives = 40/57 (70%), Gaps = 1/57 (1%)
 Frame = -3

Query: 219    GFEPIIVEPIRDHDALITNVESVNRIVEQRGEE-ILCVMTTTSCFAPRSPDNIEAIS 274
              G+ PII+E  R  D L T+V ++ + +E+ G + ILCV+TTTSCFAPRSPD  E  S
Sbjct: 202863 GYTPIIIELRRSGDQLATDVTAIRQAIEEHGPDAILCVVTTTSCFAPRSPDE*ETPS 202693



 Score = 44.3 bits (103), Expect(2) = 2e-10
 Identities = 22/51 (43%), Positives = 31/51 (60%)
 Frame = -3

Query: 74     QIPEEGWSEHTLDLFLSWLSSHDTNNRVDMIPVGAGEREGRVLTPLVQRLH 124
              Q PE+GWS+ T++L +  L+  D+NN       G GEREGR+   +V R H
Sbjct: 203679 QWPEQGWSDETIELLMHELAIMDSNNFPG--STGLGEREGRIAAGIVARRH 203533



 Score = 40.4 bits (93), Expect(2) = 2e-10
 Identities = 19/30 (63%), Positives = 24/30 (80%)
 Frame = -2

Query: 127    LTHGIGRSGNLLEIQPKALGSSMLACLSNE 156
              L HGIGRSG++  IQPKA GSS+LA L+ +
Sbjct: 203437 LGHGIGRSGDIAAIQPKAAGSSLLARLTEK 203348



 Score = 34.7 bits (78), Expect(4) = 1e-32
 Identities = 15/31 (48%), Positives = 21/31 (67%)
 Frame = -1

Query: 171    KSCIVVPLCTGMSLSLCMTSWRRRRPKAKYV 201
              K CI++P+ TGM+L   M + R RRP A+ V
Sbjct: 203186 KQCILLPVATGMALVFAMLTLRPRRPSARCV 203094



 Score = 31.6 bits (70), Expect(4) = 1e-32
 Identities = 13/21 (61%), Positives = 17/21 (80%)
 Frame = -2

Query: 200    YVIWLRIDQKSSLKSIYHAGF 220
              YV+W RIDQK+ LK+I  AG+
Sbjct: 202999 YVVWSRIDQKTCLKAIVTAGW 202937


>scaffold_5 
          Length = 1613056

 Score = 32.0 bits (71), Expect = 1.5
 Identities = 10/31 (32%), Positives = 21/31 (67%)
 Frame = +3

Query: 173    CIVVPLCTGMSLSLCMTSWRRRRPKAKYVIW 203
              C+ V +C  + + +C+ SW+ +R  A+Y++W
Sbjct: 717705 CVCVCVCVCVCVCVCVWSWKWQRGCARYLVW 717797


>scaffold_39 
          Length = 348207

 Score = 30.0 bits (66), Expect = 5.8
 Identities = 11/24 (45%), Positives = 15/24 (62%)
 Frame = +1

Query: 451    EFINFGSHTAEQHGGYLNVACSIG 474
              +F+  GSH A QHG ++   C IG
Sbjct: 149302 QFLALGSHAAMQHGNFVQSFCKIG 149373


  Database: genome.fa
    Posted date:  Jan 19, 2010  5:06 PM
  Number of letters in database: 41,633,360
  Number of sequences in database:  218
  
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: 29,127,139
Number of Sequences: 218
Number of extensions: 541948
Number of successful extensions: 4111
Number of sequences better than 10.0: 4
Number of HSP's better than 10.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 3520
Number of HSP's gapped (non-prelim): 1574
length of query: 523
length of database: 13,877,786
effective HSP length: 107
effective length of query: 416
effective length of database: 13,854,460
effective search space: 5763455360
effective search space used: 5763455360
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: 64 (29.3 bits)