>VNUA_PRVKA (P33485) Probable nuclear antigen|
          Length = 1733

 Score = 36.2 bits (82), Expect = 0.024
 Identities = 24/68 (35%), Positives = 27/68 (39%)
 Frame = +1

Query: 7    RHPNARKGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEGPA 186
            R    R GRGG+             GR G   PR   GGPG   RA RG VR+      A
Sbjct: 1442 RGRGGRGGRGGR-------------GRGGGRAPRGGGGGPGGGGRAGRGEVRVAAAAAGA 1488

Query: 187  EECQGAPD 210
             E   A +
Sbjct: 1489 AEAAAAAE 1496

>CO3A1_MOUSE (P08121) Collagen alpha-1(III) chain precursor|
          Length = 1464

 Score = 33.9 bits (76), Expect = 0.12
 Identities = 23/62 (37%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
 Frame = +1

Query: 25  KGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEG-PAEECQG 201
           KG GG      ++      G RGEH P  PAG PGA      G    + E G P E+ +G
Sbjct: 778 KGEGGSPGLPGIAGPRGGPGERGEHGPPGPAGFPGAP--GQNGEPGAKGERGAPGEKGEG 835

Query: 202 AP 207
            P
Sbjct: 836 GP 837

>CO3A1_RAT (P13941) Collagen alpha-1(III) chain precursor|
          Length = 1463

 Score = 33.5 bits (75), Expect = 0.16
 Identities = 23/62 (37%), Positives = 28/62 (45%), Gaps = 1/62 (1%)
 Frame = +1

Query: 25  KGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEG-PAEECQG 201
           KG GG      ++      G RGEH P  PAG PGA      G    + E G P E+ +G
Sbjct: 778 KGEGGAPGLPGIAGPRGGPGERGEHGPPGPAGFPGAP--GQNGEPGAKGERGAPGEKGEG 835

Query: 202 AP 207
            P
Sbjct: 836 GP 837

>COHA1_HUMAN (Q9UMD9) Collagen alpha-1(XVII) chain (Bullous pemphigoid antigen|
           2) (180 kDa bullous pemphigoid antigen 2)
          Length = 1497

 Score = 32.0 bits (71), Expect = 0.45
 Identities = 19/57 (33%), Positives = 24/57 (42%)
 Frame = +1

Query: 13  PNARKGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEGP 183
           P   KG+ G   +  +       GR G   PR  AG PG+ E+  RGA       GP
Sbjct: 601 PQGPKGQKGSVGDPGMEGPMGQRGREGPMGPRGEAGPPGSGEKGERGAAGEPGPHGP 657

>CB4C_ARATH (Q9S7W1) Chlorophyll a-b binding protein CP29.3, chloroplast|
           precursor (LHCII protein 4.3) (LHCB4.3)
          Length = 276

 Score = 30.4 bits (67), Expect = 1.3
 Identities = 12/20 (60%), Positives = 14/20 (70%)
 Frame = +2

Query: 107 GTRLADPAPQNGRIVARFGF 166
           G R+ DP P  GR+ ARFGF
Sbjct: 14  GIRIQDPRPGTGRVQARFGF 33

>UL50_HCMVA (P16791) Protein UL50 (HFLF4 protein)|
          Length = 397

 Score = 30.4 bits (67), Expect = 1.3
 Identities = 18/68 (26%), Positives = 23/68 (33%), Gaps = 4/68 (5%)
 Frame = -3

Query: 194 HSSAGPSSCRSRTXXXXXXXXXXXXXXXXXGTCSPRRPPTKPWLLTRSS*LC----PPRP 27
           HS +GPS  R+R                      PR P   P ++           PP P
Sbjct: 187 HSGSGPSLWRARMSAALTRTAGKRSSRTASPPPPPRHPSCSPTMVAAGGAAAGPRPPPPP 246

Query: 26  LRALGWRL 3
           + A  WRL
Sbjct: 247 MAAGSWRL 254

>ARHG6_RAT (Q5XXR3) Rho guanine nucleotide exchange factor 6 (Rac/Cdc42|
           guanine nucleotide exchange factor 6)
          Length = 772

 Score = 30.0 bits (66), Expect = 1.7
 Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
 Frame = -3

Query: 182 GPSSCRSRTXXXXXXXXXXXXXXXXXGTCSPRRPPT--KPWLLTRSS*LCPPRPLRALGW 9
           GP+SC S +                     P  PP   KPW L+      P RP  ALG+
Sbjct: 549 GPASCSSLSKTSSSSCSTHSSFSSTGQPRGPLEPPQIIKPWSLSCLRPAPPLRPSAALGY 608

Query: 8   R 6
           +
Sbjct: 609 K 609

>ARHG6_HUMAN (Q15052) Rho guanine nucleotide exchange factor 6 (Rac/Cdc42|
           guanine nucleotide exchange factor 6) (PAK-interacting
           exchange factor alpha) (Alpha-Pix) (COOL-2)
          Length = 776

 Score = 30.0 bits (66), Expect = 1.7
 Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
 Frame = -3

Query: 182 GPSSCRSRTXXXXXXXXXXXXXXXXXGTCSPRRPPT--KPWLLTRSS*LCPPRPLRALGW 9
           GP+SC S +                     P  PP   KPW L+      P RP  ALG+
Sbjct: 549 GPASCSSLSKTSSSSCSAHSSFSSTGQPRGPLEPPQIIKPWSLSCLRPAPPLRPSAALGY 608

Query: 8   R 6
           +
Sbjct: 609 K 609

>COHA1_CANFA (Q9N281) Collagen alpha-1(XVII) chain (Bullous pemphigoid antigen|
           2) (180 kDa bullous pemphigoid antigen 2) (Fragment)
          Length = 709

 Score = 30.0 bits (66), Expect = 1.7
 Identities = 19/57 (33%), Positives = 23/57 (40%)
 Frame = +1

Query: 13  PNARKGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEGP 183
           P   KG+ G   E  +       GR G   PR   G PG  E+  RGA      +GP
Sbjct: 602 PQGPKGQKGSVGEPGMEGPMGQKGREGPMGPRGEPGPPGFGEKGDRGAAGEPGVQGP 658

>HNRL1_MOUSE (Q8VDM6) Heterogeneous nuclear ribonucleoprotein U-like protein 1|
          Length = 859

 Score = 29.6 bits (65), Expect = 2.2
 Identities = 16/43 (37%), Positives = 20/43 (46%)
 Frame = +1

Query: 25  KGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRG 153
           +GRGG    +R  + G  GG RG    R   GG G     +RG
Sbjct: 618 RGRGGGGGFQRYDNRGPPGGNRGGFQNRGGGGGSGGGGGNYRG 660

>ARHG6_MOUSE (Q8K4I3) Rho guanine nucleotide exchange factor 6 (Rac/Cdc42|
           guanine nucleotide exchange factor 6)
          Length = 771

 Score = 29.6 bits (65), Expect = 2.2
 Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
 Frame = -3

Query: 182 GPSSCRSRTXXXXXXXXXXXXXXXXXGTCSPRRPPT--KPWLLTRSS*LCPPRPLRALGW 9
           GP+SC S +                     P  PP   KPW L+      P RP  ALG+
Sbjct: 548 GPTSCGSLSKTSSSSCSTHSSFSSTGQPRGPLEPPQIIKPWSLSCLRPAPPLRPSAALGY 607

Query: 8   R 6
           +
Sbjct: 608 K 608

>CO7A1_HUMAN (Q02388) Collagen alpha-1(VII) chain precursor (Long-chain collagen)|
            (LC collagen)
          Length = 2944

 Score = 29.3 bits (64), Expect = 2.9
 Identities = 27/67 (40%), Positives = 30/67 (44%), Gaps = 8/67 (11%)
 Frame = +1

Query: 7    RHPNARKGRGGQS*EE-RVSSHGFVG--GRRGEHVPRDPAG-----GPGAAERAHRGAVR 162
            R P   KG  G   E+ R  S G  G  G RGE  P  P G     GPGA E+   G   
Sbjct: 1666 RGPVGEKGDQGDPGEDGRNGSPGSSGPKGDRGEPGPPGPPGRLVDTGPGAREKGEPGD-- 1723

Query: 163  LRQEEGP 183
             R +EGP
Sbjct: 1724 -RGQEGP 1729

>CO6A3_CHICK (P15989) Collagen alpha-3(VI) chain precursor|
          Length = 3137

 Score = 29.3 bits (64), Expect = 2.9
 Identities = 20/49 (40%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
 Frame = +1

Query: 16   NARKGRGGQS*EERVSSHGFVG--GRRGEHVPRDPAGGPG-AAERAHRG 153
            + R G GG   + R    GFVG  G +G    R  AGGPG    R  RG
Sbjct: 2301 DGRDGIGGPGPKGRKGERGFVGYPGPKGGPGDRGGAGGPGPKGNRGRRG 2349

>CO3A1_BOVIN (P04258) Collagen alpha-1(III) chain|
          Length = 1049

 Score = 29.3 bits (64), Expect = 2.9
 Identities = 18/43 (41%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
 Frame = +1

Query: 82  GRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEG-PAEECQGAP 207
           G RGE  P  PAG PGA      G    + E G P E+ +G P
Sbjct: 642 GERGEQGPPGPAGFPGAP--GQNGEPGAKGERGAPGEKGEGGP 682

>IF2_PELCD (Q3A4A7) Translation initiation factor IF-2|
          Length = 947

 Score = 28.9 bits (63), Expect = 3.8
 Identities = 20/54 (37%), Positives = 24/54 (44%)
 Frame = +1

Query: 49  EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEGPAEECQGAPD 210
           EER  + G +  RR E VP++    P AA            EE PAEE Q   D
Sbjct: 58  EERRITAGVIRRRRKE-VPQEEKAAPPAAAEEPSSVDTAVAEEAPAEEVQPVSD 110

>PP1RA_RAT (O55000) Serine/threonine-protein phosphatase 1 regulatory subunit|
           10 (Phosphatase 1 nuclear targeting subunit) (PNUTS
           protein) (MHC class I region proline-rich protein CAT53)
          Length = 872

 Score = 28.9 bits (63), Expect = 3.8
 Identities = 19/48 (39%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
 Frame = +1

Query: 13  PNARKGRGGQS*EERVSSHGFVGGRRGEHVPRD-PAGGPGAAERAHRG 153
           PN R G GG          G VGG  G H P + P G  G+  R+H G
Sbjct: 734 PNGRGGPGGG---------GMVGG--GGHRPHEGPGGSMGSGHRSHEG 770

>IF2_BIFLO (Q8G3Y5) Translation initiation factor IF-2|
          Length = 954

 Score = 28.9 bits (63), Expect = 3.8
 Identities = 23/77 (29%), Positives = 30/77 (38%), Gaps = 13/77 (16%)
 Frame = +1

Query: 16  NARKGRGGQS*EERVSSHGFVGGRRGE-------------HVPRDPAGGPGAAERAHRGA 156
           N R GR G+  + +    GF GGR G+             + P    G  GA +   RG 
Sbjct: 221 NGRGGRPGRPGQGQGQGRGFRGGRPGQGGQGGPRPGQWGHNRPGQGGGSQGAGQGGARGG 280

Query: 157 VRLRQEEGPAEECQGAP 207
            R  Q  G   +  GAP
Sbjct: 281 FRGGQGGGNNFQGGGAP 297

>TMC2_HUMAN (Q8TDI7) Transmembrane cochlear-expressed protein 2|
          Length = 906

 Score = 28.9 bits (63), Expect = 3.8
 Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 3/65 (4%)
 Frame = +1

Query: 4   SRHPNARKGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGG---PGAAERAHRGAVRLRQE 174
           S H   R GR   S +  + + G  G R  +   ++ AGG   PG+  R   G  R R+E
Sbjct: 24  SPHTGDRLGRRSSS-KRALKAEGTPGRRGAQRSQKERAGGSPSPGSPRRKQTGRRRHREE 82

Query: 175 EGPAE 189
            G  E
Sbjct: 83  LGEQE 87

>CO3A1_HUMAN (P02461) Collagen alpha-1(III) chain precursor|
          Length = 1466

 Score = 28.9 bits (63), Expect = 3.8
 Identities = 22/62 (35%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
 Frame = +1

Query: 25  KGRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEG-PAEECQG 201
           KG GG      ++      G RGE  P  PAG PGA      G    + E G P E+ +G
Sbjct: 779 KGEGGAPGLPGIAGPRGSPGERGETGPPGPAGFPGAP--GQNGEPGGKGERGAPGEKGEG 836

Query: 202 AP 207
            P
Sbjct: 837 GP 838

>FGF20_HUMAN (Q9NP95) Fibroblast growth factor 20 (FGF-20)|
          Length = 211

 Score = 28.1 bits (61), Expect = 6.5
 Identities = 15/31 (48%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
 Frame = +1

Query: 82  GRRGEHVPRDPAGGPGAAERAH-RGAVRLRQ 171
           G R     R   GGPGAA+ AH  G +R RQ
Sbjct: 38  GERRSAAERSARGGPGAAQLAHLHGILRRRQ 68

>CO2A1_MOUSE (P28481) Collagen alpha-1(II) chain precursor [Contains:|
           Chondrocalcin]
          Length = 1459

 Score = 27.7 bits (60), Expect = 8.5
 Identities = 24/56 (42%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
 Frame = +1

Query: 28  GRGGQS*EERVSSHGFVG--GRRGEHVPRDPAGGPG-AAERAHRGAVRLRQEEGPA 186
           G  GQ+ E  ++  GF G  G +GE  P  P G PG A E   RGA   R E G A
Sbjct: 422 GPKGQAGEPGIA--GFKGDQGPKGETGPAGPQGAPGPAGEEGKRGA---RGEPGGA 472

>5E5_RAT (Q63003) 5E5 antigen|
          Length = 825

 Score = 27.7 bits (60), Expect = 8.5
 Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 3/62 (4%)
 Frame = +1

Query: 7   RHPNARKGRGGQS*EERVSSHGFVGG---RRGEHVPRDPAGGPGAAERAHRGAVRLRQEE 177
           R    RKGR G+  E   +S    GG     G   P   AGG G   RA     + R+  
Sbjct: 440 RKRRGRKGRMGRQLETTATSASATGGPAEEAGASAPEGQAGG-GPRGRARGPRQQARRRH 498

Query: 178 GP 183
           GP
Sbjct: 499 GP 500

>CO2A1_RAT (P05539) Collagen alpha-1(II) chain precursor [Contains:|
           Chondrocalcin]
          Length = 1419

 Score = 27.7 bits (60), Expect = 8.5
 Identities = 21/54 (38%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
 Frame = +1

Query: 28  GRGGQS*EERVSSHGFVGGRRGEHVPRDPAGGPG-AAERAHRGAVRLRQEEGPA 186
           G  GQ+ E  ++      G +GE  P  P G PG A E   RGA   R E G A
Sbjct: 382 GPKGQTGEPGIAGFKGEQGPKGETGPAGPQGAPGPAGEEGKRGA---RGEPGGA 432

>COAA1_MOUSE (Q05306) Collagen alpha-1(X) chain precursor|
          Length = 680

 Score = 27.7 bits (60), Expect = 8.5
 Identities = 23/67 (34%), Positives = 29/67 (43%), Gaps = 2/67 (2%)
 Frame = +1

Query: 13  PNARKGRGGQS*EERVSSHGFVG--GRRGEHVPRDPAGGPGAAERAHRGAVRLRQEEGPA 186
           P  ++GR G      + S G  G  G +G       AG PGA     +G   LR + GPA
Sbjct: 254 PPGKQGREGIGKPGAIGSPGQPGIPGEKGHPGAPGIAGPPGAPGFGKQGLPGLRGQRGPA 313

Query: 187 EECQGAP 207
               GAP
Sbjct: 314 -GLPGAP 319


  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: 23,904,943
Number of Sequences: 219361
Number of extensions: 361488
Number of successful extensions: 1405
Number of sequences better than 10.0: 24
Number of HSP's better than 10.0 without gapping: 1144
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): 1397
length of database: 80,573,946
effective HSP length: 45
effective length of database: 70,702,701
effective search space used: 1696864824
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)