>CO3A1_CHICK (P12105) Collagen alpha-1(III) chain precursor (Fragments)|
          Length = 1262

 Score = 34.7 bits (78), Expect = 0.22
 Identities = 26/81 (32%), Positives = 31/81 (38%)
 Frame = +2

Query: 92  GHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFEDGPGFESAFKLFHGQDGIVPL 271
           G PG    P  R + G+         P   RG  GP    GP  +       GQDG   L
Sbjct: 479 GTPGERGSPGFRGLPGSNGLPGEKG-PAGERGSPGPPGPSGPAGD------RGQDGGPGL 531

Query: 272 SGRSYVPDENGSESTDVKPEP 334
            G   +P   GS  +D KP P
Sbjct: 532 PGMRGLPGIPGSPGSDGKPGP 552

>CO8A2_HUMAN (P25067) Collagen alpha-2(VIII) chain precursor (Endothelial|
           collagen)
          Length = 703

 Score = 33.9 bits (76), Expect = 0.37
 Identities = 28/84 (33%), Positives = 34/84 (40%)
 Frame = +2

Query: 92  GHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFEDGPGFESAFKLFHGQDGIVPL 271
           G PG E+ P  + + G      S+ LP   RG  GP  E GPG         G  G   L
Sbjct: 346 GEPG-EQGP--QGLGGPPGLPGSAGLP-GRRGPPGPKGEAGPGGPPGVPGIRGDQGPSGL 401

Query: 272 SGRSYVPDENGSESTDVKPEPALP 343
           +G+  VP E G       P P  P
Sbjct: 402 AGKPGVPGERGLPGAHGPPGPTGP 425

>CAFF_RIFPA (P30754) Fibril-forming collagen alpha chain (Fragment)|
          Length = 1027

 Score = 32.7 bits (73), Expect = 0.82
 Identities = 21/64 (32%), Positives = 27/64 (42%)
 Frame = +2

Query: 182 RGGKGPIFEDGPGFESAFKLFHGQDGIVPLSGRSYVPDENGSESTDVKPEPALPFNPLAA 361
           RGG GP+   G G         G  G   LSG      ++G++  D  P PA P  P+  
Sbjct: 75  RGGIGPMGPRGAGGMPGMPGPKGHRGFRGLSGSKGEQGKSGNQGPDGGPGPAGPSGPIGP 134

Query: 362 RAAT 373
           R  T
Sbjct: 135 RGQT 138



 Score = 30.0 bits (66), Expect = 5.3
 Identities = 16/46 (34%), Positives = 22/46 (47%)
 Frame = -2

Query: 228 DSKPGPSSKIGPLPPRAATGKAEENEKVVAPLMFLRNGHLSTPGWP 91
           D  PGP+   GP+ PR  TG+   + K   P +   +G    PG P
Sbjct: 120 DGGPGPAGPSGPIGPRGQTGERGRDGKSGLPGLRGVDGLAGPPGPP 165

>RPOB_UREPA (Q9PQV6) DNA-directed RNA polymerase beta chain (EC 2.7.7.6) (RNAP|
            beta subunit) (Transcriptase beta chain) (RNA polymerase
            beta subunit)
          Length = 1434

 Score = 32.3 bits (72), Expect = 1.1
 Identities = 16/32 (50%), Positives = 20/32 (62%)
 Frame = +2

Query: 224  ESAFKLFHGQDGIVPLSGRSYVPDENGSESTD 319
            +S+ K+ HGQ+GIV    R    DENGSE  D
Sbjct: 1030 DSSLKVKHGQEGIVAAVKRIKSSDENGSELPD 1061

>CO1A1_HUMAN (P02452) Collagen alpha-1(I) chain precursor|
          Length = 1464

 Score = 32.0 bits (71), Expect = 1.4
 Identities = 23/83 (27%), Positives = 32/83 (38%)
 Frame = +2

Query: 89  SGHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFEDGPGFESAFKLFHGQDGIVP 268
           +G+PG +  P  +  NGA   + +   P    G +GP    GPG     K   G+ G   
Sbjct: 385 AGNPGADGQPGAKGANGAPGIAGAPGFP----GARGPSGPQGPGGPPGPKGNSGEPGAPG 440

Query: 269 LSGRSYVPDENGSESTDVKPEPA 337
             G +    E G       P PA
Sbjct: 441 SKGDTGAKGEPGPVGVQGPPGPA 463

>PARA_TRYBB (P18764) Procyclic form-specific polypeptide A-alpha precursor|
           (Procyclin A-alpha) (PARP A-alpha)
          Length = 114

 Score = 31.6 bits (70), Expect = 1.8
 Identities = 29/81 (35%), Positives = 34/81 (41%), Gaps = 14/81 (17%)
 Frame = +2

Query: 161 SALPVAARGGKGPIFEDGP------GFESAFKLFHGQDGIVPLSGRSYVPDENGSESTDV 322
           SA  V  +GGKG   EDGP      G E       G +   P       P+E G E T+ 
Sbjct: 31  SASNVIVKGGKGKEREDGPEEPEETGPEETGPEETGPEETGP---EETGPEETGPEETEP 87

Query: 323 KPEP--------ALPFNPLAA 361
           +PEP        ALPF   AA
Sbjct: 88  EPEPGAATLKSVALPFAVAAA 108

>CO9A1_HUMAN (P20849) Collagen alpha-1(IX) chain precursor|
          Length = 921

 Score = 31.2 bits (69), Expect = 2.4
 Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 3/90 (3%)
 Frame = -2

Query: 351 GLKGRAG-SGLTSVLSLPFSSGTYDLPERGTIPSCPWKSLNADS--KPGPSSKIGPLPPR 181
           G  G AG  GL  V  +P + G          P  P +  N+    + GP  ++GP  P+
Sbjct: 562 GPPGDAGLQGLPGVPGIPGAKGVAGEKGSTGAPGKPGQMGNSGKPGQQGPPGEVGPRGPQ 621

Query: 180 AATGKAEENEKVVAPLMFLRNGHLSTPGWP 91
              G   E   V +P +  + G L +PG P
Sbjct: 622 GLPGSRGELGPVGSPGLPGKLGSLGSPGLP 651

>NEK9_HUMAN (Q8TD19) Serine/threonine-protein kinase Nek9 (EC 2.7.11.1)|
           (NimA-related protein kinase 9) (Never in mitosis
           A-related kinase 9) (Nercc1 kinase) (NIMA-related kinase
           8) (Nek8)
          Length = 979

 Score = 31.2 bits (69), Expect = 2.4
 Identities = 19/53 (35%), Positives = 24/53 (45%)
 Frame = -2

Query: 228 DSKPGPSSKIGPLPPRAATGKAEENEKVVAPLMFLRNGHLSTPGWPEKFSDDA 70
           DS PGPS+  GP   RA  G AE+ E    P+  L  G         +  DD+
Sbjct: 27  DSSPGPSASQGP---RAGGGAAEQEELHYIPIRVLGRGAFGEATLYRRTEDDS 76

>ZFY2_MOUSE (P20662) Zinc finger Y-chromosomal protein 2|
          Length = 783

 Score = 30.8 bits (68), Expect = 3.1
 Identities = 27/86 (31%), Positives = 36/86 (41%)
 Frame = -3

Query: 320 HQCSHCRSHQAHMIFLKGGLSHPVHGKA*MPTQSLVHPQRSDPCLPGQLQAKQKKMKRLW 141
           HQCSHC    ++   LK  +   VH KA        +P + D C  G  +  + K K + 
Sbjct: 611 HQCSHCNHKSSNSSDLKRHII-SVHTKA--------YPHKCDMCSKGFHRPSELK-KHVA 660

Query: 140 LH*CSSGMGISQHRDGQKSSPMTLSH 63
            H  S  M   +H D     P  LSH
Sbjct: 661 TH-KSKKMHQCRHCDFNSPDPFLLSH 685

>CAND_DROME (P27398) Calpain D (EC 3.4.22.-) (Calcium-activated neutral|
           proteinase D) (CANP D) (Small optic lobes protein)
          Length = 1594

 Score = 30.8 bits (68), Expect = 3.1
 Identities = 15/46 (32%), Positives = 24/46 (52%)
 Frame = +1

Query: 397 IWVQLL*WQGQKAEQEAQQSRPVTQEAQQAKSEFHETKRRQPTVPR 534
           +W+Q       KAEQ+ QQ +   Q+ QQ +   H  +++Q   PR
Sbjct: 659 LWLQTCEMCEAKAEQQQQQLQLQQQQQQQQQHHHHHLQQQQAEAPR 704

>GATA5_MOUSE (P97489) Transcription factor GATA-5 (GATA-binding factor 5)|
          Length = 404

 Score = 30.8 bits (68), Expect = 3.1
 Identities = 29/91 (31%), Positives = 39/91 (42%), Gaps = 3/91 (3%)
 Frame = +2

Query: 65  DSASSENFSGHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFEDGPGFESAFKLF 244
           DS++  + S HP     P      GATTF F+ + P +  GG   +  DG  F+ A  L 
Sbjct: 71  DSSAFGSGSPHPPAAHPP------GATTFPFAHSPPGSGSGGSAGV-RDGGAFQGA--LL 121

Query: 245 HGQDGIVPLS---GRSYVPDENGSESTDVKP 328
             +    PL    G SY        S+DV P
Sbjct: 122 AREQYPTPLGRPMGASYPTTYPAYMSSDVAP 152

>ZFY1_MOUSE (P10925) Zinc finger Y-chromosomal protein 1|
          Length = 782

 Score = 30.8 bits (68), Expect = 3.1
 Identities = 27/86 (31%), Positives = 36/86 (41%)
 Frame = -3

Query: 320 HQCSHCRSHQAHMIFLKGGLSHPVHGKA*MPTQSLVHPQRSDPCLPGQLQAKQKKMKRLW 141
           HQCSHC    ++   LK  +   VH KA        +P + D C  G  +  + K K + 
Sbjct: 611 HQCSHCNHKSSNSSDLKRHII-SVHTKA--------YPHKCDMCSKGFHRPSELK-KHVA 660

Query: 140 LH*CSSGMGISQHRDGQKSSPMTLSH 63
            H  S  M   +H D     P  LSH
Sbjct: 661 TH-KSKKMHQCRHCDFNSPDPFLLSH 685

>CO1A1_MOUSE (P11087) Collagen alpha-1(I) chain precursor|
          Length = 1453

 Score = 30.4 bits (67), Expect = 4.1
 Identities = 22/83 (26%), Positives = 32/83 (38%)
 Frame = +2

Query: 89  SGHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFEDGPGFESAFKLFHGQDGIVP 268
           +G+PG +  P  +  NGA   + +   P    G +GP    GP      K   G+ G   
Sbjct: 374 AGNPGADGQPGAKGANGAPGIAGAPGFP----GARGPSGPQGPSGPPGPKGNSGEPGAPG 429

Query: 269 LSGRSYVPDENGSESTDVKPEPA 337
             G +    E G+      P PA
Sbjct: 430 NKGDTGAKGEPGATGVQGPPGPA 452

>NUMBL_HUMAN (Q9Y6R0) Numb-like protein (Numb-R)|
          Length = 609

 Score = 30.4 bits (67), Expect = 4.1
 Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
 Frame = -2

Query: 195 PLPPRAATGKAEENEKVVAPLMFLRNGHLSTPG----WPEKFSDDAESQNR 55
           P PP A TG +   E  V P    + GH  TP     W E+ S  A++Q +
Sbjct: 379 PGPPPATTGTSAWGEPSVPPAAAFQPGHKRTPSEAERWLEEVSQVAKAQQQ 429

>BLM_DROME (Q9VGI8) Bloom syndrome protein homolog (EC 3.6.1.-) (Dmblm)|
           (Mutagen-sensitive protein 309) (RecQ helicase homolog)
          Length = 1487

 Score = 30.4 bits (67), Expect = 4.1
 Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
 Frame = +2

Query: 128 NINGATTFSFSSALPVAARGGKGPIFEDGP----GFESAFKLFHGQDGIVPLSGRSYVPD 295
           N+   +T   SS  P   +G    +FED P      E  +KL   ++  +P    +   +
Sbjct: 260 NLASISTLLDSSRAPNTYKGSSRNLFEDSPEKSGSGEQGYKLGSAKENEIPTKPATASLE 319

Query: 296 ENGSESTDVKPEPALPFNPLAARAATISLS 385
            N   S+   P PA P  P  + A   SL+
Sbjct: 320 RNSVTSS---PSPAAPLKPRYSVAFDNSLA 346

>CO1A1_RAT (P02454) Collagen alpha-1(I) chain precursor|
          Length = 1453

 Score = 30.0 bits (66), Expect = 5.3
 Identities = 22/83 (26%), Positives = 31/83 (37%)
 Frame = +2

Query: 89  SGHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFEDGPGFESAFKLFHGQDGIVP 268
           +G+PG +  P  +  NGA   + +   P    G +GP    GP      K   G+ G   
Sbjct: 374 AGNPGADGQPGAKGANGAPGIAGAPGFP----GARGPSGPQGPSGAPGPKGTSGEPGAPG 429

Query: 269 LSGRSYVPDENGSESTDVKPEPA 337
             G +    E G       P PA
Sbjct: 430 NKGDTGAKGEPGPAGVQGPPGPA 452

>NEK9_MOUSE (Q8K1R7) Serine/threonine-protein kinase Nek9 (EC 2.7.11.1)|
           (NimA-related protein kinase 9) (Never in mitosis
           A-related kinase 9)
          Length = 984

 Score = 29.6 bits (65), Expect = 6.9
 Identities = 19/53 (35%), Positives = 24/53 (45%)
 Frame = -2

Query: 228 DSKPGPSSKIGPLPPRAATGKAEENEKVVAPLMFLRNGHLSTPGWPEKFSDDA 70
           DS PGPS+  GP   RA  G AE+ E    P+  L  G         +  DD+
Sbjct: 27  DSGPGPSAVPGP---RAGGGAAEQEELHYIPIRVLGRGAFGEATLYRRTEDDS 76

>CO9A1_CHICK (P12106) Collagen alpha-1(IX) chain precursor|
          Length = 920

 Score = 29.6 bits (65), Expect = 6.9
 Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 4/61 (6%)
 Frame = +2

Query: 182 RGGKGPIFEDGPGFESAFKLFHGQDGIVPLSGRSYVPDENGSES----TDVKPEPALPFN 349
           +G +GP+ E+GP  E   +   G +G+    G S +P  +G E        K EP  P  
Sbjct: 502 QGQRGPVGEEGPKGERGPQGTRGINGLPGPKGESGLPGVDGREGIPGMPGAKGEPGKPGT 561

Query: 350 P 352
           P
Sbjct: 562 P 562

>PDP2_HUMAN (Q9P2J9) [Pyruvate dehydrogenase [lipoamide]]-phosphatase 2,|
           mitochondrial precursor (EC 3.1.3.43) (PDP 2) (Pyruvate
           dehydrogenase phosphatase, catalytic subunit 2) (PDPC 2)
          Length = 529

 Score = 29.3 bits (64), Expect = 9.1
 Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 5/33 (15%)
 Frame = +3

Query: 318 MSSLNLLCPLIHWLLEPLP*VYH-----HLDHL 401
           M S+  L P++HWL  P   +Y      HLDHL
Sbjct: 177 MESMKPLLPILHWLKHPGDSIYKDVTSVHLDHL 209

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

 Score = 29.3 bits (64), Expect = 9.1
 Identities = 26/84 (30%), Positives = 30/84 (35%), Gaps = 3/84 (3%)
 Frame = +2

Query: 92  GHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFE---DGPGFESAFKLFHGQDGI 262
           G PG    P      GA  F    A P    G KGP  E    GP          G+DG+
Sbjct: 471 GEPGANGLPGAAGERGAPGFR-GPAGPNGIPGEKGPAGERGAPGPAGPRGAAGEPGRDGV 529

Query: 263 VPLSGRSYVPDENGSESTDVKPEP 334
               G   +P   G   +D KP P
Sbjct: 530 PGGPGMRGMPGSPGGPGSDGKPGP 553

>CO4A3_HUMAN (Q01955) Collagen alpha-3(IV) chain precursor (Goodpasture antigen)|
          Length = 1670

 Score = 29.3 bits (64), Expect = 9.1
 Identities = 18/58 (31%), Positives = 22/58 (37%)
 Frame = -2

Query: 339  RAGSGLTSVLSLPFSSGTYDLPERGTIPSCPWKSLNADSKPGPSSKIGPLPPRAATGK 166
            R   G   ++SLP S G    P    +   P         PGP   +GP  PR   GK
Sbjct: 1345 RGDPGTLKIISLPGSPGPPGTPGEPGMQGEP-------GPPGPPGNLGPCGPRGKPGK 1395

>CO1A1_CANFA (Q9XSJ7) Collagen alpha-1(I) chain precursor|
          Length = 1460

 Score = 29.3 bits (64), Expect = 9.1
 Identities = 22/83 (26%), Positives = 31/83 (37%)
 Frame = +2

Query: 89  SGHPGVERCPFLRNINGATTFSFSSALPVAARGGKGPIFEDGPGFESAFKLFHGQDGIVP 268
           +G+PG +  P  +  NGA   + +   P    G +GP    GP      K   G+ G   
Sbjct: 381 AGNPGADGQPGAKGANGAPGIAGAPGFP----GARGPSGPQGPSGPPGPKGNSGEPGAPG 436

Query: 269 LSGRSYVPDENGSESTDVKPEPA 337
             G +    E G       P PA
Sbjct: 437 NKGDTGAKGEPGPTGIQGPPGPA 459


  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: 92,914,383
Number of Sequences: 219361
Number of extensions: 1932531
Number of successful extensions: 6708
Number of sequences better than 10.0: 22
Number of HSP's better than 10.0 without gapping: 5999
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): 6690
length of database: 80,573,946
effective HSP length: 107
effective length of database: 57,102,319
effective search space used: 5253413348
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)