>FEN1A_ORYSA (Q9SXQ6) Flap endonuclease 1a (EC 3.1.-.-) (OsFEN-1a)|
          Length = 380

 Score = 95.5 bits (236), Expect = 3e-20
 Identities = 48/52 (92%), Positives = 50/52 (96%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVSTSVPLKRKETSE 251
           LVKENGF+QDRVTKAIEKIK AKNKSSQGRLESFFKP VSTSVPLKRK+TSE
Sbjct: 310 LVKENGFNQDRVTKAIEKIKFAKNKSSQGRLESFFKPVVSTSVPLKRKDTSE 361

>RAD2_SCHPO (P39750) DNA-repair protein rad2|
          Length = 380

 Score = 45.8 bits (107), Expect = 2e-05
 Identities = 21/41 (51%), Positives = 28/41 (68%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVST 284
           LVKE GF++DRV   I +++ A     QGRL+SFFKP  S+
Sbjct: 311 LVKEKGFNEDRVKLGINRLEKASKTIPQGRLDSFFKPVPSS 351

>FEN1_MOUSE (P39749) Flap endonuclease 1 (EC 3.1.-.-)|
          Length = 378

 Score = 39.3 bits (90), Expect = 0.002
 Identities = 19/46 (41%), Positives = 30/46 (65%)
 Frame = -2

Query: 397 ENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVSTSVPLKRKE 260
           E  FS++R+   ++++  ++  S+QGRL+ FFK T S S   KRKE
Sbjct: 311 EKQFSEERIRSGVKRLSKSRQGSTQGRLDDFFKVTGSLS-SAKRKE 355

>FEN1_HUMAN (P39748) Flap endonuclease 1 (EC 3.1.-.-) (Maturation factor 1)|
           (MF1)
          Length = 380

 Score = 39.3 bits (90), Expect = 0.002
 Identities = 19/46 (41%), Positives = 30/46 (65%)
 Frame = -2

Query: 397 ENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVSTSVPLKRKE 260
           E  FS++R+   ++++  ++  S+QGRL+ FFK T S S   KRKE
Sbjct: 313 EKQFSEERIRSGVKRLSKSRQGSTQGRLDDFFKVTGSLS-SAKRKE 357

>FEN_PYRAE (Q8ZYN2) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 346

 Score = 38.9 bits (89), Expect = 0.003
 Identities = 15/35 (42%), Positives = 27/35 (77%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           L++E+ FS++RV+KA+E+++ A+ K     L+SFF
Sbjct: 312 LIREHDFSEERVSKALERLRKARGKLKTSSLDSFF 346

>FEN1B_ORYSA (Q75LI2) Flap endonuclease 1b (EC 3.1.-.-) (OsFEN-1b)|
          Length = 412

 Score = 38.5 bits (88), Expect = 0.004
 Identities = 18/30 (60%), Positives = 22/30 (73%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGR 317
           L  EN FS DRV K++EKIK+A +K S GR
Sbjct: 310 LAAENNFSPDRVVKSVEKIKAANDKFSLGR 339

>FEN_NANEQ (P61942) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 339

 Score = 35.8 bits (81), Expect = 0.025
 Identities = 17/35 (48%), Positives = 26/35 (74%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           LV+E+ F+ +RV +AIE+++ A NK +Q  L SFF
Sbjct: 303 LVEEHDFNPERVERAIERLEKALNKINQKTLFSFF 337

>FEN_PYRFU (O93634) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 340

 Score = 33.5 bits (75), Expect = 0.12
 Identities = 15/36 (41%), Positives = 22/36 (61%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFK 299
           L  E+ FS++RV   +E++K A     Q  LES+FK
Sbjct: 304 LCDEHDFSEERVKNGLERLKKAIKSGKQSTLESWFK 339

>FEN_METKA (Q8TXU4) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 348

 Score = 32.3 bits (72), Expect = 0.28
 Identities = 16/39 (41%), Positives = 26/39 (66%), Gaps = 4/39 (10%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQG----RLESFF 302
           LV+E  FS+DRV +A+E++K A  +  +G     L++FF
Sbjct: 310 LVEERDFSEDRVRRAVERLKEALQELRKGGRQETLDAFF 348

>FEN_PYRHO (O50123) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 343

 Score = 32.0 bits (71), Expect = 0.36
 Identities = 15/35 (42%), Positives = 21/35 (60%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           L  E+ FS++RV   IE++K A     Q  LES+F
Sbjct: 304 LCDEHNFSEERVKNGIERLKKAIKAGRQSTLESWF 338

>RAD27_YEAST (P26793) Structure-specific endonuclease RAD27|
          Length = 382

 Score = 31.6 bits (70), Expect = 0.47
 Identities = 15/45 (33%), Positives = 22/45 (48%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVSTSVPL 272
           L  +  FS++RV   I ++K       QGRL+ FF+    T   L
Sbjct: 313 LCDDKKFSEERVKSGISRLKKGLKSGIQGRLDGFFQVVPKTKEQL 357

>FEN_PYRAB (Q9V0P9) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 343

 Score = 31.2 bits (69), Expect = 0.61
 Identities = 14/35 (40%), Positives = 21/35 (60%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           L  E+ FS++RV   +E++K A     Q  LES+F
Sbjct: 304 LCDEHDFSEERVKNGLERLKKAIKAGKQSTLESWF 338

>FEN_PYRKO (Q5JGN0) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 340

 Score = 30.8 bits (68), Expect = 0.80
 Identities = 14/35 (40%), Positives = 21/35 (60%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           L  E+ FS++RV   +E++K A     Q  LES+F
Sbjct: 304 LCDEHDFSEERVKNGLERLKKAVKAGKQRTLESWF 338

>FEN_METAC (Q8TIY5) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 338

 Score = 30.4 bits (67), Expect = 1.0
 Identities = 16/35 (45%), Positives = 23/35 (65%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           L +EN FS DRV KA E++K+A   + Q  L+ +F
Sbjct: 305 LCEENDFSTDRVEKAAERLKAASG-ARQKTLDQWF 338

>FEN_METTH (O27670) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 328

 Score = 30.0 bits (66), Expect = 1.4
 Identities = 16/35 (45%), Positives = 23/35 (65%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           L  E+GFS+DRV  A++K + A   S+Q  LE +F
Sbjct: 296 LCTEHGFSEDRVRAALKKFEGA--SSTQKSLEDWF 328

>FEN_METMA (Q8PYF6) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 338

 Score = 30.0 bits (66), Expect = 1.4
 Identities = 13/28 (46%), Positives = 18/28 (64%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQ 323
           L  EN FS+DRV KA +++K+A     Q
Sbjct: 305 LCDENDFSEDRVVKAADRLKAASGARQQ 332

>FEN_SULAC (Q4JAN1) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 349

 Score = 29.3 bits (64), Expect = 2.3
 Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 4/39 (10%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEK----IKSAKNKSSQGRLESFF 302
           LVK + F++DRV   IE+    IK AK+   Q  L+ +F
Sbjct: 311 LVKNHDFNEDRVNNGIERLKKAIKEAKSVEKQTGLDQWF 349

>194K_TRVSY (P05080) Putative 194 kDa protein (Putative replicase) [Contains: 134|
            kDa protein]
          Length = 1707

 Score = 29.3 bits (64), Expect = 2.3
 Identities = 14/32 (43%), Positives = 18/32 (56%)
 Frame = -2

Query: 352  IKSAKNKSSQGRLESFFKPTVSTSVPLKRKET 257
            IKS   K      E+F KP + T++P KRK T
Sbjct: 1252 IKSGNWKDKFAEKETFLKPVIRTAMPDKRKTT 1283

>CRUM1_MOUSE (Q8VHS2) Crumbs homolog 1 precursor|
          Length = 1405

 Score = 28.9 bits (63), Expect = 3.0
 Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
 Frame = -1

Query: 257  FRETSQCSCWQKDEVNPWKEEIS*CANKSC--SGILS*IVHLLLCN*KLCSV 108
            F+E  QC CW        +E+I+ CA+  C   G+   +V+  LC   +C V
Sbjct: 1276 FQEDWQCMCWPGFTGEWCEEDINECASDPCINGGLCRDLVNRFLC---ICDV 1324

>PSC_DROME (P35820) Polycomb group protein Psc (Protein posterior sex combs)|
          Length = 1601

 Score = 28.5 bits (62), Expect = 4.0
 Identities = 25/104 (24%), Positives = 42/104 (40%)
 Frame = -2

Query: 403 VKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVSTSVPLKRKETSEXXXXXXXXX 224
           + ENG  ++    A+E ++++ + SS     S    + S+S P  R+ TSE         
Sbjct: 162 ILENGIKKESTPPAVESVEASSSSSSSSSSSS----SSSSSWPTTRRATSEDASSNGGAS 217

Query: 223 XXXXXXXXXX*VDVRTKAAVASSVRSFTSCCVTKNFVRCSLVVS 92
                       +  T A  ASS  + TS   T +  R  L+ +
Sbjct: 218 ADEEKSE-----EDPTAAVAASSTATTTSDLATTSRPRPVLLTA 256

>LRC40_MACFA (Q4R3P6) Leucine-rich repeat-containing protein 40|
          Length = 602

 Score = 28.5 bits (62), Expect = 4.0
 Identities = 10/26 (38%), Positives = 17/26 (65%)
 Frame = +2

Query: 11  NYQQMNKHETEFRFFPSQVTNLPNLR 88
           N Q++N    + + FP ++TNL NL+
Sbjct: 129 NLQKLNVSHNKLKIFPEEITNLRNLK 154

>FEN_PICTO (Q6L2I9) Flap structure-specific endonuclease (EC 3.1.-.-)|
          Length = 338

 Score = 28.1 bits (61), Expect = 5.2
 Identities = 13/35 (37%), Positives = 19/35 (54%)
 Frame = -2

Query: 406 LVKENGFSQDRVTKAIEKIKSAKNKSSQGRLESFF 302
           L  ++ FS+ RV + +EKI     K  Q  L+ FF
Sbjct: 304 LCGKHNFSESRVNETLEKISRNYKKDHQSSLDRFF 338

>Y755_SYNY3 (Q55624) Putative peroxiredoxin sll0755 (EC 1.11.1.15) (Thioredoxin|
           reductase)
          Length = 200

 Score = 28.1 bits (61), Expect = 5.2
 Identities = 24/78 (30%), Positives = 33/78 (42%), Gaps = 11/78 (14%)
 Frame = +3

Query: 114 TKFLVTQQEVNDLTE----DATAAFVRTSTY-------FFLPRVDFVFLPAAALAGFSEV 260
           T+ L   Q   D T     D +   V+ STY       FF P +DF F+    +  FS+ 
Sbjct: 2   TEVLRVGQPAPDFTATAIVDQSFQTVKLSTYRGKYLVLFFYP-LDFTFVCPTEIIAFSDR 60

Query: 261 SFRFSGTDVLTVGLKNDS 314
              F+  D   VG+  DS
Sbjct: 61  HSEFTALDTEVVGISVDS 78

>LRP_CAEEL (Q04833) Low-density lipoprotein receptor-related protein precursor|
            (LRP)
          Length = 4753

 Score = 27.7 bits (60), Expect = 6.8
 Identities = 15/37 (40%), Positives = 20/37 (54%)
 Frame = +2

Query: 128  YTTGGERSN*GCHCSFCSHINLFLPSTG*LRLFASSC 238
            Y    +R+  GC  + CSH+ + LPSTG    FA  C
Sbjct: 4470 YAKDTQRTVSGCERAQCSHLCVSLPSTG----FACLC 4502

>RPOBC_WOLPM (Q73IW9) Bifunctional DNA-directed RNA polymerase, beta and beta'|
            chain (EC 2.7.7.6) [Includes: DNA-directed RNA polymerase
            beta chain (Transcriptase beta chain) (RNA polymerase
            beta subunit); DNA-directed RNA polymerase beta' chain
            (Transcri
          Length = 2837

 Score = 27.3 bits (59), Expect = 8.9
 Identities = 12/40 (30%), Positives = 19/40 (47%)
 Frame = +3

Query: 81   IFEHDTTREHRTKFLVTQQEVNDLTEDATAAFVRTSTYFF 200
            +F      E+    L+ Q+E+ND  E+       TS YF+
Sbjct: 953  VFTRRGVEENERALLIKQKEINDFEEERDYIINVTSEYFY 992

>OTX2_HUMAN (P32243) Homeobox protein OTX2|
          Length = 289

 Score = 27.3 bits (59), Expect = 8.9
 Identities = 16/42 (38%), Positives = 23/42 (54%)
 Frame = -2

Query: 400 KENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVSTSVP 275
           ++NG  Q++V  A +K   A+  SS+      F P  STSVP
Sbjct: 100 QQNG-GQNKVRPAKKKTSPAREVSSESGTSGQFTPPSSTSVP 140

>OTX2_BRARE (Q91981) Homeobox protein OTX2 (ZOTX2)|
          Length = 289

 Score = 27.3 bits (59), Expect = 8.9
 Identities = 16/42 (38%), Positives = 23/42 (54%)
 Frame = -2

Query: 400 KENGFSQDRVTKAIEKIKSAKNKSSQGRLESFFKPTVSTSVP 275
           ++NG  Q++V  A +K   A+  SS+      F P  STSVP
Sbjct: 100 QQNG-GQNKVRPAKKKSSPAREASSESGASGQFTPPSSTSVP 140


  Database: uniprot_sprot.fasta
    Posted date:  May 25, 2006  5:36 PM
  Number of letters in database: 80,573,946
  Number of sequences in database:  219,361
  
Lambda     K      H
   0.318    0.135    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 51,081,681
Number of Sequences: 219361
Number of extensions: 944788
Number of successful extensions: 2464
Number of sequences better than 10.0: 27
Number of HSP's better than 10.0 without gapping: 2436
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 2464
length of database: 80,573,946
effective HSP length: 111
effective length of database: 56,224,875
effective search space used: 1349397000
frameshift window, decay const: 50,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)