BLASTP 2.1.3 [Apr-1-2001]


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= all0001 ID:6715 {-311 <--- 918} unknown protein
         (409 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig647.revised.gene32.protein 
          Length = 438

 Score =  256 bits (655), Expect = 3e-069
 Identities = 169/438 (38%), Positives = 235/438 (53%), Gaps = 45/438 (10%)

Query: 2   KFVRNIVILLSSLAAVLTVCENANAGKGSLNVGAK-IPPGQERQLLQYQLQNDGKGLHRI 60
           K VR   I  SSLA  LT C++A A    LN+G   I  G E + LQYQ+ N  + L+++
Sbjct: 13  KAVRFATIAFSSLAVGLTTCQSAFA---QLNIGRYGIQQGLESEYLQYQINN--QNLNQM 67

Query: 61  RVIPECSVGFALGCNKTGTILEQVIQSNGGPTYQQMLMRAAGGEDNYRKFSSFYGYNPN- 119
           RVIP C+VGF L CNKTG++++++++ NGG TYQ +L+RAAGGE N++ F+SFYG NPN 
Sbjct: 68  RVIPGCNVGFGLTCNKTGSVIQRLVELNGGSTYQNLLIRAAGGEKNFQNFASFYGNNPNL 127

Query: 120 ---PYASVWRKFDREILDSVQYSSGSRLSSNPVAGLRDVTKNFPLSPLPGSDP----RSG 172
              P+AS WR     I+DS QY  G     NPV GL  VT  F  SP  G +     R G
Sbjct: 128 SVVPFASFWRNESPAIMDSSQYLLGQHFGRNPVEGLGLVTNQFYWSPYSGGNNSVSLRDG 187

Query: 173 FINLKISYVNTLLQEASKIPDLKQQIGQLGLDSKMTQFYVDNIERGLNALRSGNNKETQE 232
            ++LK SY   L +EASKI ++K+QI  LGL  +MT FY+D I  GLNAL SG+  + ++
Sbjct: 188 LLDLKFSYGRLLFEEASKISNIKEQIQSLGLSPEMTNFYIDKISTGLNALNSGDPNQLEK 247

Query: 233 ISLRILSYPYTFPLKNGGLYGR----VAQETGALIQEGVTPYGEVLTETT---TSGGLEV 285
               +LSYPY+   ++GG  GR    + +E   L+ E +   G++L   +     G    
Sbjct: 248 RVFELLSYPYS---EDGGELGRPNNAIPEEFNQLLGEDIP--GDMLVSDSPVPLDGETIA 302

Query: 286 IEGEGLRGDLAFVATAKGSPRFSPYW-------XXXXXXXXXXXXSRDNPAISSPPRTSG 338
            +  G  GD+        SP   P W                   S   P++S       
Sbjct: 303 FDIPGSEGDV----VVADSPDSFPLWPLGIGALVIAMILLMDGDSSSGQPSVSQGNTPIP 358

Query: 339 IPTPPTNPPS----NVCDFV-XXXXXXXXXVCETPIT---QPPTEVTRVMEPSTMKAILL 390
           IPTPP  P S      CD            + E P     +PPTEV +V+EPST+KA++L
Sbjct: 359 IPTPPPTPLSLTSKGECDLTPSGNGFDRTQIIEIPCNVTPKPPTEVKKVVEPSTIKALVL 418

Query: 391 LTLIFCLVRYKQRSVQTK 408
           L ++  +VR K RS++ +
Sbjct: 419 LIVLLYIVRSKHRSLKIR 436


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.316    0.136    0.395 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1883359
Number of Sequences: 7432
Number of extensions: 81029
Number of successful extensions: 195
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 189
Number of HSP's gapped (non-prelim): 1
length of query: 409
length of database: 2,397,140
effective HSP length: 45
effective length of query: 364
effective length of database: 2,062,700
effective search space: 750822800
effective search space used: 750822800
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 91 (39.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0002 ID:2 {981 <--- 1718} unknown protein
         (245 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig647.revised.gene30.protein 
          Length = 213

 Score =  225 bits (573), Expect = 6e-060
 Identities = 111/215 (51%), Positives = 152/215 (70%), Gaps = 11/215 (5%)

Query: 18  MKPIIFLTQLLTLSALAFVSVPNVVVAQDTP---------ASPQPQAAQKICTSDPVENL 68
           M  I+ L   + L      ++ ++ ++ D P         A  Q +  Q+IC+ DP+E+L
Sbjct: 1   MNIIVRLVGAIALQVSVLAAMSSMAMSADKPLRLRIQEAAAVSQRKTTQRICSLDPIEDL 60

Query: 69  LPPLPGQKRGNDSALSYLAAQGFTQSEDGSWVCYVNDSKKEGRYYTLFKVQEVNGKLIGS 128
           LPP   Q + N+S LSYLA QGFTQ+++GSWVCY ND K+EGRY+TLFKV+ V+ +LI S
Sbjct: 61  LPP--PQTKANNSLLSYLAEQGFTQNQEGSWVCYANDPKQEGRYFTLFKVKRVDNRLIAS 118

Query: 129 SFLDGGTLTAEQDSRSLDFFMTLIANHTNIEADNRQSIRRYLEAFIELVAEGKIQPSRRG 188
           SFLD G+L   Q++RSLDFFM LI +H N   +NR+ IRRYLEAF+ LV +GKI+P+RR 
Sbjct: 119 SFLDEGSLIQGQENRSLDFFMMLIEHHLNTTQENRKGIRRYLEAFVSLVKQGKIKPTRRA 178

Query: 189 FVFDQPNRALVIYHKLTTGELQGTAITLNIQVPKS 223
           F+FDQPNR +V+YH L++G L+GT IT+NI +PKS
Sbjct: 179 FLFDQPNRGMVLYHTLSSGNLKGTGITINIYLPKS 213


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.316    0.133    0.372 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1108702
Number of Sequences: 7432
Number of extensions: 44315
Number of successful extensions: 126
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 124
Number of HSP's gapped (non-prelim): 1
length of query: 245
length of database: 2,397,140
effective HSP length: 45
effective length of query: 200
effective length of database: 2,062,700
effective search space: 412540000
effective search space used: 412540000
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 89 (38.9 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0004 ID:5 {3418 <--- 4365} ATP synthase subunit gamma (atpC)
         (315 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene59.protein 
          Length = 315

 Score =  456 bits (1174), Expect = e-129
 Identities = 238/315 (75%), Positives = 263/315 (82%)

Query: 1   MPNLKSIRDRIQSVKNTKKITEAMXXXXXXXXXXXQEQVIATRPFADRLAQVLYGLQTRL 60
           M NLK+IRDRIQSVKNTKKITEAM           QEQV+ATRPFADRLAQVLYGLQ+RL
Sbjct: 1   MANLKAIRDRIQSVKNTKKITEAMRLVAAARVRRAQEQVLATRPFADRLAQVLYGLQSRL 60

Query: 61  RFEDVDLPLLKKREVKSVGLLVISGDRGLCGGYNTNVIRRAENRAKELKAEGLDYTFVIV 120
           RFE+ +LPLL+KREVKSVGLLVISGDRGLCGGYN NVIRRAENRAKE+KAEGL+Y FV+V
Sbjct: 61  RFEEANLPLLRKREVKSVGLLVISGDRGLCGGYNNNVIRRAENRAKEIKAEGLNYQFVLV 120

Query: 121 GRKAEQYFRRREQPIDASYTGLEQIPTADEANKIADELLSLFLSEKVDRIELVYTRFVSL 180
           GRK+ QYF+RR+QPIDA+Y+GLEQIPTA EAN+IAD+LLSLFLSE+VDRIEL+YTRF+SL
Sbjct: 121 GRKSTQYFQRRDQPIDATYSGLEQIPTAAEANQIADQLLSLFLSEEVDRIELIYTRFLSL 180

Query: 181 VSSRPVIQTLLPLDTQGLEAADDEIFRLTTRGGQFQVERQTVTSQARPLPRDMIFEQDPV 240
           VSSRPV+QTLLPLD QGLEAADDEIFRLTTRGG+F+VER+ V SQ RPL  DMIFEQDPV
Sbjct: 181 VSSRPVVQTLLPLDPQGLEAADDEIFRLTTRGGKFEVEREKVASQVRPLAPDMIFEQDPV 240

Query: 241 QIXXXXXXXXXXXXXXXXXXXXXXXXXXXXMTAMSNASENAGELIKSLSLSYNKARQAAI 300
           QI                            MTAMSNASENAGELI +L+LSYNKARQAAI
Sbjct: 241 QILDSLLPLYLSNQLLRALQESAASELAARMTAMSNASENAGELINTLTLSYNKARQAAI 300

Query: 301 TQELLEVVGGAEALT 315
           TQELLEVVGGAEALT
Sbjct: 301 TQELLEVVGGAEALT 315


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.317    0.134    0.358 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1087198
Number of Sequences: 7432
Number of extensions: 37993
Number of successful extensions: 82
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 80
Number of HSP's gapped (non-prelim): 1
length of query: 315
length of database: 2,397,140
effective HSP length: 50
effective length of query: 265
effective length of database: 2,025,540
effective search space: 536768100
effective search space used: 536768100
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 90 (39.3 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0005 ID:7 {4454 <--- 5974} ATP synthase subunit alpha (atpA)
         (506 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene58.protein 
          Length = 506

 Score =  880 bits (2274), Expect = 0.0
 Identities = 460/506 (90%), Positives = 475/506 (92%)

Query: 1   MSISIRPDXXXXXXXXXXXXYDQEVKVANVGTVLQVGDGIARIYGLEKAMAGELLEFEDG 60
           MSISIRPD            YDQEVKVANVGTVLQVGDGIARIYGLEKAMAGELLEFEDG
Sbjct: 1   MSISIRPDEISSIIQQQIEQYDQEVKVANVGTVLQVGDGIARIYGLEKAMAGELLEFEDG 60

Query: 61  TVGIAQNLEEDNVGAVLMGEGREIQEGSTVTATGRIAQIGVGEALIGRVVDALGRAIDGK 120
           T+GIAQNLEEDNVGAVLMGEG EIQEGS+VTATGRIAQI VGEALIGRVVDALGR IDGK
Sbjct: 61  TIGIAQNLEEDNVGAVLMGEGLEIQEGSSVTATGRIAQIPVGEALIGRVVDALGRPIDGK 120

Query: 121 GDIKASESRLIESPAPGIIARRSVHEPMQTGITAIDSMIPIGRGQRELIIGDRQTGKTAI 180
           GDIK+SESRLIESPAPGIIARRSVHEPMQTGITAIDSMIPIGRGQRELIIGDRQTGKTAI
Sbjct: 121 GDIKSSESRLIESPAPGIIARRSVHEPMQTGITAIDSMIPIGRGQRELIIGDRQTGKTAI 180

Query: 181 AIDTIINQKGEDVVCVYVAIGQKASTVANVVQTLQEKGAMDYTVVVAAGASEPATLQFLA 240
           AIDTIINQK EDV+CVYVAIGQKASTVANVVQTLQEKGAMDYT+VVAA ASEPATLQ+LA
Sbjct: 181 AIDTIINQKEEDVICVYVAIGQKASTVANVVQTLQEKGAMDYTIVVAASASEPATLQYLA 240

Query: 241 PYTGATIAEYFMYKGKATLVIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYIHSRLL 300
           PYTGATIAEYFMYKGKATLVIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYIHSRLL
Sbjct: 241 PYTGATIAEYFMYKGKATLVIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYIHSRLL 300

Query: 301 ERAAKLSDELGKGSMTALPIIETQAGDVSAYIPTNVISITDGQIFLSSDLFNAGIRPAVN 360
           ERAAKLSDELGKGSMTALPIIETQAGDVSAYIPTNVISITDGQIFLSSDLFNAGIRPAVN
Sbjct: 301 ERAAKLSDELGKGSMTALPIIETQAGDVSAYIPTNVISITDGQIFLSSDLFNAGIRPAVN 360

Query: 361 PGISVSRVGSAAQTKAMKKVAGKIKLELAQFDDLQAFAQFASDLDKATQDQLARGQRLRE 420
           PGISVSRVGSAAQTKAMKKVAGKIKLELAQFDDLQAFAQFASDLDKATQDQLARGQRLRE
Sbjct: 361 PGISVSRVGSAAQTKAMKKVAGKIKLELAQFDDLQAFAQFASDLDKATQDQLARGQRLRE 420

Query: 421 LLKQSQNQPLSVAEQVAILYAGINGYLDDIPVDKVTTFTKGLRDYLKSGVNPYFQDVQSK 480
           LLKQ QN PLSV EQVAILYAGINGYLDD+PVDKVT+FT+GLR+YLK+G   Y + V++ 
Sbjct: 421 LLKQPQNSPLSVYEQVAILYAGINGYLDDVPVDKVTSFTQGLREYLKTGKTQYAEGVRTS 480

Query: 481 KALGDDEEKALKAALEDYKKTFKATA 506
           KALGD EE ALK AL +YKKTFKA A
Sbjct: 481 KALGDAEEAALKEALTEYKKTFKAAA 506


>Contig627.revised.gene34.protein 
          Length = 482

 Score =  114 bits (284), Expect = 4e-026
 Identities = 101/388 (26%), Positives = 171/388 (44%), Gaps = 24/388 (6%)

Query: 61  TVGIAQNLEEDNVGAVLMGEGREIQEGSTVTATGRIAQIGVGEALIGRVVDALGRAIDGK 120
           TV + Q L ++ V  V M     +  G  VT TG    + VG+A +GR+ + LG  +D +
Sbjct: 52  TVEVQQLLGDNQVRTVAMSSTEGLVRGFEVTDTGAPITVPVGKATLGRIFNVLGEPVDNR 111

Query: 121 GDIKASESRLIESPAPGIIARRSVHEPMQTGITAIDSMIPIGRGQRELIIGDRQTGKTAI 180
           G + A  S  I   AP      +     +TGI  +D + P  RG +  + G    GKT I
Sbjct: 112 GPVNAEASLPIHRSAPKFTDLETKPSVFETGIKVVDLLTPYRRGGKIGLFGGAGVGKTVI 171

Query: 181 AIDTIIN---QKGEDVVCVYVAIGQKASTVANVVQTLQEKGAMD-------YTVVVAAGA 230
            ++ I N   Q G   V V+  +G++     ++   + E G ++          +V    
Sbjct: 172 MMELINNIATQHGG--VSVFAGVGERTREGNDLYNEMIESGVINNENLNESKIALVYGQM 229

Query: 231 SEPATLQFLAPYTGATIAEYFMYKGKATLVIY-DDLSKQAQAYRQMSLLLRRPPGREAYP 289
           +EP   +     +G T+AEYF    K  ++++ D++ +  QA  ++S LL R P    Y 
Sbjct: 230 NEPPGARMRVGLSGLTVAEYFRDVNKQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQ 289

Query: 290 GDVFYIHSRLLERAAKLSDELGKGSMTALPIIETQAGDVSAYIPTNVISITDGQIFLSSD 349
             +      L ER    ++    GS+T++  +   A D++   P    +  DG   LS  
Sbjct: 290 PTLGTDVGELQERITSTTE----GSITSIQAVYVPADDLTDPAPATTFAHLDGTTVLSRG 345

Query: 350 LFNAGIRPAVNP-GISVSRVGSAAQTKAMKKVAGKIKLELAQFDDLQAFAQFASDLDKAT 408
           L   GI PAV+P G + + +            A  ++  L ++ +LQ         + + 
Sbjct: 346 LAAKGIYPAVDPLGSTSTMLQPNIVGDEHYNTARAVQSTLQRYKELQDIIAILGLDELSE 405

Query: 409 QDQL--ARGQRLRELLKQSQNQPLSVAE 434
           +D+L  AR +++   L    +QP  VAE
Sbjct: 406 EDRLIVARARKVERFL----SQPFFVAE 429


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.316    0.134    0.363 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2094510
Number of Sequences: 7432
Number of extensions: 88168
Number of successful extensions: 332
Number of sequences better than 1.0e-003: 2
Number of HSP's better than  0.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 328
Number of HSP's gapped (non-prelim): 2
length of query: 506
length of database: 2,397,140
effective HSP length: 49
effective length of query: 457
effective length of database: 2,032,972
effective search space: 929068204
effective search space used: 929068204
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 92 (40.0 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0006 ID:8 {6138 <--- 6689} ATP synthase subunit delta (atpD)
         (183 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene57.protein 
          Length = 184

 Score =  223 bits (569), Expect = 1e-059
 Identities = 124/167 (74%), Positives = 134/167 (79%), Gaps = 1/167 (0%)

Query: 1   MTSKVANTEVAQPYAQALLSIAKSKSLTEEFGTDAXXXXXXXXXXXXXXNFIDNPFIAAE 60
           MTS+VA  EVAQPYAQALLSIA+SK+LTEEFG DA              NF  NPFI AE
Sbjct: 1   MTSQVAAAEVAQPYAQALLSIAQSKNLTEEFGEDARTFLGLLRADKQLHNFFSNPFIQAE 60

Query: 61  NKKALIKQILSEAS-PYLRNFLLLLVDKRRIFFLPEILQQYLALLRQLNQTVLAEVTSAV 119
           NKKALIKQIL E S PYLRNFLL+LVDKRRI FL  I QQYLALLRQLNQTVLAEV SAV
Sbjct: 61  NKKALIKQILGEGSNPYLRNFLLILVDKRRIAFLESIFQQYLALLRQLNQTVLAEVISAV 120

Query: 120 ALTEDQQQAVTEKVLALTKARQVELATKVDSDLIGGVIIKVGSQVID 166
            LTE QQQA+ +KV+A++ ARQVEL TKVDS+LIGGVIIKVGSQVID
Sbjct: 121 PLTEAQQQAIIQKVIAISNARQVELETKVDSELIGGVIIKVGSQVID 167


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.316    0.131    0.334 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 554149
Number of Sequences: 7432
Number of extensions: 17263
Number of successful extensions: 106
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 104
Number of HSP's gapped (non-prelim): 1
length of query: 183
length of database: 2,397,140
effective HSP length: 50
effective length of query: 133
effective length of database: 2,025,540
effective search space: 269396820
effective search space used: 269396820
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 87 (38.1 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0007 ID:9 {6686 <--- 7249} ATP synthase subunit b (atpF)
         (187 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene56.protein 
          Length = 190

 Score =  128 bits (322), Expect = 5e-031
 Identities = 77/187 (41%), Positives = 92/187 (49%)

Query: 1   MGTFLLLMXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXFVFGRKVLGNTL 60
           MGTFLLL                                         F FGRKVL N L
Sbjct: 4   MGTFLLLAAEANAVHSELAEGAAEGGFGLNLDIFETNLINLAILVGILFYFGRKVLSNIL 63

Query: 61  KTRRENIETAIKNAEQRXXXXXXXXXXXXXXXXXXXXXXXRIKKSAQDNXXXXXXXXXXX 120
             R+ NI TAI+ AE R                       RI++SA +N           
Sbjct: 64  NERQSNIATAIQEAEGRLKEAKTALSQAQEQLKQSQAEAERIRQSAVENAQKAKEALLAK 123

Query: 121 XXVDIERLQEAGAADLNAELDRAIAQLRQRVVALALQKVESELQGGISEDAQKTLIDRSI 180
              D+ERL++  AADLN E +RAIAQLRQRV  LALQKVES+L+GGI++DAQ++LIDRSI
Sbjct: 124 AVQDVERLKQTAAADLNTETERAIAQLRQRVATLALQKVESQLKGGIADDAQQSLIDRSI 183

Query: 181 AQLGGGV 187
           AQLGG V
Sbjct: 184 AQLGGNV 190


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.317    0.134    0.342 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 391508
Number of Sequences: 7432
Number of extensions: 8809
Number of successful extensions: 39
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 38
Number of HSP's gapped (non-prelim): 1
length of query: 187
length of database: 2,397,140
effective HSP length: 49
effective length of query: 138
effective length of database: 2,032,972
effective search space: 280550136
effective search space used: 280550136
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 87 (38.1 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0008 ID:10 {7359 <--- 7850} ATP synthase subunit b' (atpG)
         (163 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene55.protein 
          Length = 143

 Score = 99.8 bits (247), Expect = 2e-022
 Identities = 58/143 (40%), Positives = 70/143 (48%)

Query: 19  LFDLDATXXXXXXXXXXXXXXXXXXXYKPLGKAIDGRNEYVRNNQLEAQERLSKAEKLAE 78
           +FD DAT                   YKPL K +D R+ Y+R N LEA+E L+KAE+LA 
Sbjct: 1   MFDFDATLPFMALQFLLLAAVLNAIFYKPLTKVLDDRDSYIRTNTLEARESLAKAERLAT 60

Query: 79  AYEQELAGARRQAQTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXKQQALAS 138
            YEQ+LA ARRQ+Q                                       KQQA ++
Sbjct: 61  EYEQQLADARRQSQATVEAAQLEAKKITAEKIAEAQKEAQSQREQASVEIEQQKQQAFST 120

Query: 139 LEQQVDALSRQILEKLLGADLVK 161
           LEQQVDALSRQILEKLLG   V+
Sbjct: 121 LEQQVDALSRQILEKLLGPTPVR 143


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.312    0.129    0.337 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 427633
Number of Sequences: 7432
Number of extensions: 9549
Number of successful extensions: 45
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 43
Number of HSP's gapped (non-prelim): 1
length of query: 163
length of database: 2,397,140
effective HSP length: 50
effective length of query: 113
effective length of database: 2,025,540
effective search space: 228886020
effective search space used: 228886020
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 87 (38.1 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0010 ID:12 {8324 <--- 9079} ATP synthase subunit a (atpI)
         (251 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene53.protein 
          Length = 253

 Score =  338 bits (867), Expect = 5e-094
 Identities = 168/240 (70%), Positives = 188/240 (78%), Gaps = 1/240 (0%)

Query: 1   MLNFLN-FYSVPLAELEVGKHLYWQIGNLKLHGQVFLTSWFVIGVLVLASVAASSNVKRI 59
           ML+ LN F S PLAELEVG H YWQ+GNLK+HGQVFLTSWFVI +LV+AS+AA+ N +RI
Sbjct: 3   MLSVLNAFNSFPLAELEVGHHFYWQLGNLKIHGQVFLTSWFVISILVVASIAATRNAQRI 62

Query: 60  PSGIQNLLEYALEFIRDLAKNQIGEKEYRPWVPFVGTLFLFIFVSNWSGALVPFKLIHLP 119
           P GIQNL+EYALEFIRDLAKNQ+GEKEYRPWVPF+GTLFLFIFVSNWSGAL+P+KLI LP
Sbjct: 63  PKGIQNLMEYALEFIRDLAKNQLGEKEYRPWVPFIGTLFLFIFVSNWSGALIPWKLIKLP 122

Query: 120 EGELTAPTSDINXXXXXXXXXXXXYFYAGFSKKGLGYFGNYVQPVSFMLPFKIIEDFTKP 179
            GEL APT+DIN            YFYAGFSK+GLGYF  Y++P   +LP  I+EDFTKP
Sbjct: 123 SGELAAPTNDINTTVALALLTSLAYFYAGFSKRGLGYFKKYIEPTPVLLPIAILEDFTKP 182

Query: 180 LSLSFRLFGNILADEXXXXXXXXXXXXXXXXXXMALGLFTSAIQALIFATLAAAYIGEAM 239
           LSLSFRLFGNILADE                  MALGLFTSAIQAL+FATLA AYI EAM
Sbjct: 183 LSLSFRLFGNILADELVVAVLVLLVPLFVPLPVMALGLFTSAIQALVFATLAGAYIHEAM 242


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.326    0.143    0.433 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 992700
Number of Sequences: 7432
Number of extensions: 36505
Number of successful extensions: 108
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 106
Number of HSP's gapped (non-prelim): 1
length of query: 251
length of database: 2,397,140
effective HSP length: 39
effective length of query: 212
effective length of database: 2,107,292
effective search space: 446745904
effective search space used: 446745904
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 89 (38.9 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0011 ID:13 {9132 <--- 9500} ATP synthase subunit 1 (atp1)
         (122 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene52.protein 
          Length = 160

 Score =  152 bits (383), Expect = 3e-038
 Identities = 73/116 (62%), Positives = 88/116 (74%)

Query: 1   MQEFYQLYQEXXXXXXXXXXXXFISVWIFYSLNIALNYLLGACTGVVYLRMLAKDVERLG 60
           MQEFYQL+Q             FISVWIFYSLNIALNYL+GACTGVVYL+MLA+DVE+LG
Sbjct: 45  MQEFYQLFQRLLVITLVLTGVIFISVWIFYSLNIALNYLIGACTGVVYLKMLARDVEQLG 104

Query: 61  REKQSLSKTRXXXXXXXXXXXSRWNQLQIMPIFLGFLTYKATLIIYVVRVAFISDS 116
            EK SLSKTR           ++W +LQI+PIFLGFLTYKATL++Y+V++AF+ DS
Sbjct: 105 SEKASLSKTRFALFIGVMIVATQWRELQILPIFLGFLTYKATLLVYMVQIAFLPDS 160


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.329    0.142    0.423 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 419420
Number of Sequences: 7432
Number of extensions: 11283
Number of successful extensions: 39
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 38
Number of HSP's gapped (non-prelim): 1
length of query: 122
length of database: 2,397,140
effective HSP length: 40
effective length of query: 82
effective length of database: 2,099,860
effective search space: 172188520
effective search space used: 172188520
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 85 (37.4 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0012 ID:14 {10130 <--- 11329} hypothetical protein
         (399 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig658.revised.gene49.protein 
          Length = 393

 Score =  657 bits (1695), Expect = 0.0
 Identities = 317/392 (80%), Positives = 348/392 (87%)

Query: 1   MSDPQAVSSAVAKLYDTYXXXXXXXXXXXXXGYNWRWNWLAAHSFCTGRKPAKQDIRILD 60
           MSD Q VS+AVAKLY+TY             GYNWRWNWLAAH+FCTG+KP KQDIRILD
Sbjct: 1   MSDSQTVSAAVAKLYNTYPFPPEALLDEPPPGYNWRWNWLAAHNFCTGQKPQKQDIRILD 60

Query: 61  AGCGSGVGTEYLVHLNPQAQVVGIDLSAGTLAVAKVRCQRSGANRVEFHHLSLYDVEQLP 120
           AGCG+GV TEYLVHLNPQA VVGIDLS G L VAK RCQRSGANRVEFHHLSL+DVEQLP
Sbjct: 61  AGCGTGVSTEYLVHLNPQASVVGIDLSTGALDVAKERCQRSGANRVEFHHLSLFDVEQLP 120

Query: 121 GEFDLINCVGVLHHLPDPIRGIQALAKKLAPGGLMHIFVYGELGRREIQLMQKAIALLQN 180
           GEFDLINCVGVLHH  DPIRGIQALA+KLAPGGLMHIFVYGELGR EIQLMQKAIALLQ 
Sbjct: 121 GEFDLINCVGVLHHTSDPIRGIQALAQKLAPGGLMHIFVYGELGRWEIQLMQKAIALLQG 180

Query: 181 EKQGDYRDGVQVGRKIFASLPENNRLVKREKERWAMENQRDECFADMYVHPQEVDYNIDT 240
           +K+GDYRDGVQVGR+IFASLPENNR+VK EK+RW++EN +DE FADMYVHPQE+DYNI+T
Sbjct: 181 DKKGDYRDGVQVGRQIFASLPENNRIVKYEKQRWSLENHKDEHFADMYVHPQEIDYNIET 240

Query: 241 LFELIDASGLEFIGFSNPSFWNLDRLLGKAPELIERSEKLSDRQRYRLIELLDPEVTHYE 300
           LFELIDASGLEFIGFSNPSFW+L+RLL KAPEL+ER+++LSDRQ YRLIELLDPEVTHYE
Sbjct: 241 LFELIDASGLEFIGFSNPSFWDLERLLSKAPELVERAKELSDRQLYRLIELLDPEVTHYE 300

Query: 301 FFLGRPPIKKADWSNDNALLQAIPELNPCIDGFPSQCIFNYDYQIVNLSALEFEFLQKCD 360
           FFLGRPP+ K DWS+D ALL AIPELNPCI+GFPSQC FNY+YQIVNLS  EFEF+QKCD
Sbjct: 301 FFLGRPPLVKTDWSDDKALLAAIPELNPCIEGFPSQCFFNYNYQIVNLSEPEFEFMQKCD 360

Query: 361 GNSTVAEILVSVQLSLDEVRSLIQQQLVMLIP 392
            NSTVAEIL  VQL LDEVR L+QQQL++L P
Sbjct: 361 ANSTVAEILADVQLGLDEVRKLLQQQLILLAP 392


>Contig497.revised.gene14.protein 
          Length = 441

 Score =  100 bits (249), Expect = 4e-022
 Identities = 68/253 (26%), Positives = 124/253 (48%), Gaps = 7/253 (2%)

Query: 58  ILDAGCGSGVGTEYLVHLNPQAQVVGIDLSAGTLAVAKVRCQRSGANRVEFHHLSLYDVE 117
           ILDAGCG+G  +  L   NP A++VGID+S  ++ +A+ R +  G +  EFH L + ++ 
Sbjct: 61  ILDAGCGTGYKSLVLAEANPGAKIVGIDISEESIKLAQQRLEHHGFDNAEFHVLPIQELP 120

Query: 118 QLPGEFDLINCVGVLHHLPDPIRGIQALAKKLAPGGLMHIFVYGELGRREIQLMQKAIAL 177
           +L  +FD INC  +L+  PD    +Q +   L P G++   ++  + R      QK   +
Sbjct: 121 KLNYQFDYINCDELLYLFPDLAAALQGMISVLKPNGIIRSNLHSSIQRFPYFRAQKVFTM 180

Query: 178 LQNEKQGDYRDGVQVGRKIFASLPENNRLVKR--EKERWAMENQRDECFADMYVHPQEVD 235
           +    +      +++  +   +L +N  L  R     ++  EN ++    + Y+   +  
Sbjct: 181 MGLMDENPQDLEMEIVVETMKALKDNVELKARTWNPNKYEGENGKEGILMN-YLFQGDKG 239

Query: 236 YNIDTLFELIDASGLEFIGFSNPSFWNLDRLL---GKAPELIERS-EKLSDRQRYRLIEL 291
           Y I  +F  + A+ +EFI   N   W+L  L       P  ++ S  ++S  +R +L EL
Sbjct: 240 YTISDMFTALKAADIEFISMVNWRQWDLINLFKDPDNLPVFLDMSLPEISIEERLQLFEL 299

Query: 292 LDPEVTHYEFFLG 304
           ++P     +F+ G
Sbjct: 300 INPIHRLIDFWCG 312


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.321    0.139    0.421 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1886812
Number of Sequences: 7432
Number of extensions: 81254
Number of successful extensions: 246
Number of sequences better than 1.0e-003: 12
Number of HSP's better than  0.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 235
Number of HSP's gapped (non-prelim): 12
length of query: 399
length of database: 2,397,140
effective HSP length: 42
effective length of query: 357
effective length of database: 2,084,996
effective search space: 744343572
effective search space used: 744343572
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 91 (39.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0015 ID:18 {12728 <--- 13168} transposase
         (146 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig576.revised.gene26.protein 
          Length = 263

 Score =  123 bits (308), Expect = 2e-029
 Identities = 70/144 (48%), Positives = 86/144 (59%), Gaps = 3/144 (2%)

Query: 3   GFDGGKKVKGRKRQTLVDSLGLLLKVVVSEANAGERLLAAYTXXXXXXXXXXXXXKVEVI 62
           GFDG K +KGRKR   VD+LGL+L+V+V+ AN GER                   ++  I
Sbjct: 120 GFDGAKNIKGRKRFITVDTLGLVLQVLVTAANVGERS-GGKQVLKRVKHSKQNISRLTTI 178

Query: 63  WVDSGYDGDKFALSVWLMIQAHVEVIRRTN--QEFQVLPKRWVVERTFGWLNQYRRLSKD 120
           WVD G+DGD F   V    +  V+V+ R    + F +L KRWVVERTFGWL   RRL +D
Sbjct: 179 WVDGGFDGDSFMQWVMNFCRWIVQVVLRPEPAKGFVLLKKRWVVERTFGWLMGCRRLVRD 238

Query: 121 YERLPEMSEAAIYAVMTRIMLRRL 144
           YE LPE SE  IY  M RIM+RRL
Sbjct: 239 YELLPETSETFIYLAMIRIMVRRL 262


>Contig656.revised.gene38.protein 
          Length = 84

 Score = 82.0 bits (201), Expect = 4e-017
 Identities = 44/80 (55%), Positives = 53/80 (66%), Gaps = 2/80 (2%)

Query: 67  GYDGDKFALSVWLMIQAHVEVIRRTNQE--FQVLPKRWVVERTFGWLNQYRRLSKDYERL 124
           GYDG+ F   V    +  V+V+ R  +   F +LPKRWVVERTFGWL   RRL+KDYE L
Sbjct: 4   GYDGNPFMQWVMDFYRWVVQVVLRPRERKGFVLLPKRWVVERTFGWLTGCRRLNKDYELL 63

Query: 125 PEMSEAAIYAVMTRIMLRRL 144
           PE +E  IY  M RIM+RRL
Sbjct: 64  PETAENFIYLAMIRIMVRRL 83


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.324    0.138    0.409 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 608811
Number of Sequences: 7432
Number of extensions: 19963
Number of successful extensions: 78
Number of sequences better than 1.0e-003: 4
Number of HSP's better than  0.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 71
Number of HSP's gapped (non-prelim): 5
length of query: 146
length of database: 2,397,140
effective HSP length: 41
effective length of query: 105
effective length of database: 2,092,428
effective search space: 219704940
effective search space used: 219704940
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 86 (37.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0016 ID:19 {13138 <--- 13521} transposase
         (127 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig656.revised.gene37.protein 
          Length = 208

 Score =  112 bits (281), Expect = 2e-026
 Identities = 52/109 (47%), Positives = 67/109 (60%)

Query: 4   KSYSTDLNDSEWAILAPLIPPAKCGGHPRTTDMREVCNAIYYHLKTGCQWDMLPGDFPPS 63
           K+YS++L   +W +L PLIP  K GG PR  +M +V NAI+Y L  GC W  LPGD P  
Sbjct: 3   KAYSSNLTQDQWELLEPLIPVGKTGGRPRVVEMWQVINAIFYVLTQGCTWRNLPGDLPNW 62

Query: 64  STVYSYYRKWQKRGIWEQMNHTLRDQVRQKMGKSTQPTAIAADSQSVKT 112
            TVY+Y+R W+K G W  ++  LRD  R    ++  PT    DSQSVKT
Sbjct: 63  QTVYTYFRNWRKDGTWVSIHDQLRDWERVNNERAVSPTEAIIDSQSVKT 111


>Contig576.revised.gene26.protein 
          Length = 263

 Score = 98.2 bits (243), Expect = 5e-022
 Identities = 47/109 (43%), Positives = 68/109 (62%)

Query: 4   KSYSTDLNDSEWAILAPLIPPAKCGGHPRTTDMREVCNAIYYHLKTGCQWDMLPGDFPPS 63
           K+Y ++L  +++  ++ LIP AK GG  R  DM EV NAI+Y L  G +W  LPGDFP  
Sbjct: 3   KAYPSNLTLAQYEFMSDLIPEAKPGGRKREVDMWEVLNAIFYILVEGVRWRSLPGDFPAW 62

Query: 64  STVYSYYRKWQKRGIWEQMNHTLRDQVRQKMGKSTQPTAIAADSQSVKT 112
            TVY Y+R W+K G W +++  LR+ +R +  +   P+    DSQSVK+
Sbjct: 63  QTVYRYFRNWRKDGTWVKIHDRLREWIRIENQRHPSPSEAIIDSQSVKS 111


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.319    0.131    0.423 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 605605
Number of Sequences: 7432
Number of extensions: 22434
Number of successful extensions: 54
Number of sequences better than 1.0e-003: 4
Number of HSP's better than  0.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 51
Number of HSP's gapped (non-prelim): 4
length of query: 127
length of database: 2,397,140
effective HSP length: 40
effective length of query: 87
effective length of database: 2,099,860
effective search space: 182687820
effective search space used: 182687820
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 86 (37.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0017 ID:20 {13600 <--- 14121} unknown protein
         (173 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



 ***** No hits found ******

  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.321    0.136    0.388 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 775756
Number of Sequences: 7432
Number of extensions: 27953
Number of successful extensions: 110
Number of sequences better than 1.0e-003: 0
Number of HSP's better than  0.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 110
Number of HSP's gapped (non-prelim): 0
length of query: 173
length of database: 2,397,140
effective HSP length: 43
effective length of query: 130
effective length of database: 2,077,564
effective search space: 270083320
effective search space used: 270083320
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 87 (38.1 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0025 ID:29 {22144 <--- 22584} hypothetical protein
         (146 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig455.revised.gene7.protein 
          Length = 146

 Score =  261 bits (667), Expect = 4e-071
 Identities = 122/145 (84%), Positives = 135/145 (92%)

Query: 1   MSQVLEQSIQINATASTVERCITDLTLMHRWLNPVLRCEPVGETWSTDIGSKSRFIIQIP 60
           M QVLEQSIQINATA+ VERCI+DL LM RWLNPVLRCEPV E+WSTD+GS+SRFIIQIP
Sbjct: 1   MPQVLEQSIQINATATVVERCISDLALMQRWLNPVLRCEPVSESWSTDVGSESRFIIQIP 60

Query: 61  LLQPTLNTVVSERQPGLVVWTFQGFFQGSDRWECQPIEQGTQLINRFEFDIPNPLVSWGF 120
           LL+PTLN+VV ERQPGLVVW F+GFFQG DRWECQP E+GT L+NRFEFDIPNPLVSWGF
Sbjct: 61  LLKPTLNSVVVERQPGLVVWEFKGFFQGRDRWECQPTEKGTLLLNRFEFDIPNPLVSWGF 120

Query: 121 NTFAAAWTKQDMQAQLRRLKRVAES 145
           NTFAA+WTK+DMQAQLRRLKRVAE+
Sbjct: 121 NTFAASWTKEDMQAQLRRLKRVAEN 145


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.322    0.134    0.424 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 721019
Number of Sequences: 7432
Number of extensions: 30130
Number of successful extensions: 66
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 65
Number of HSP's gapped (non-prelim): 1
length of query: 146
length of database: 2,397,140
effective HSP length: 40
effective length of query: 106
effective length of database: 2,099,860
effective search space: 222585160
effective search space used: 222585160
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 86 (37.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0028 ID:32 {23449 <--- 23844} unknown protein
         (131 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



 ***** No hits found ******

  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.316    0.132    0.387 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 609238
Number of Sequences: 7432
Number of extensions: 21642
Number of successful extensions: 84
Number of sequences better than 1.0e-003: 0
Number of HSP's better than  0.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 84
Number of HSP's gapped (non-prelim): 0
length of query: 131
length of database: 2,397,140
effective HSP length: 43
effective length of query: 88
effective length of database: 2,077,564
effective search space: 182825632
effective search space used: 182825632
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 86 (37.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0032 ID:37 {31875 <--- 33290} isochorismate synthase
         (471 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig597.revised.gene42.protein 
          Length = 471

 Score =  690 bits (1781), Expect = 0.0
 Identities = 338/458 (73%), Positives = 391/458 (84%)

Query: 1   MTVSPCRRSLFVEQKDLYQFLLAVQENCLKNHCRQIVSISLEIDWVDPLAVFDKLAQANA 60
           MTVSPCR +LFVE+KDLYQFLL VQE CL+N+ +QIVSIS EID VDPL V D+L QAN 
Sbjct: 1   MTVSPCRNNLFVERKDLYQFLLLVQEKCLQNNDKQIVSISQEIDLVDPLLVLDRLTQANE 60

Query: 61  INFYFENRGKGEAIAGIDAVTKLQIDGQERFFQSEYFIKSNLENIINFGNTNRPFAGPHF 120
           INFYFE+R KGEAIA ID+V KLQIDG +RF Q+EYFIKS L+NIINF N N+PF+GPHF
Sbjct: 61  INFYFEDRAKGEAIAAIDSVAKLQIDGADRFAQAEYFIKSCLKNIINFSNANQPFSGPHF 120

Query: 121 FCYFSFFSEKNKIEYPFPAATIFLPRWQISVRNQSCTLVMNTVINSSVNIQILLQNLRDK 180
           F YFSFF +  +++YPFP+ATIFLPRWQ++V+NQ C LV N ++N + NIQ LL+N+++K
Sbjct: 121 FSYFSFFDKNIQVDYPFPSATIFLPRWQVAVKNQRCILVTNIILNENTNIQRLLENVQNK 180

Query: 181 IELINSLEPYSPNLDYFPTNLSKKFVTNGERYKQSVASALERIKSNELSKVVLADILDVS 240
           IE I SLE YSPN+D FP NL KK VTN  ++K+SV S LE+I+S+ LSK+VLADILDV 
Sbjct: 181 IEFIQSLEYYSPNIDSFPKNLYKKSVTNATQFKRSVVSVLEKIRSSHLSKIVLADILDVK 240

Query: 241 SNQHFNLLQSLNNLRKTHPNCYIFSTSNGKGQNFIGASPERLITIHNQQLITDALAGSAP 300
           S+ HF+L++SLNNLR+ HPNCYIFSTSNGKGQNFIGASPERLI+I+NQQLITDALAGSAP
Sbjct: 241 SSNHFDLIKSLNNLRQIHPNCYIFSTSNGKGQNFIGASPERLISINNQQLITDALAGSAP 300

Query: 301 RGKTSAEDAANANRLLNSEKERHEHLLVMDFITQXXXXXXXXXXXXXXXXXXXSNIQHLW 360
           RGKT  EDAANANRLLNSEKE+HEH LV++FITQ                   SNIQHLW
Sbjct: 301 RGKTPTEDAANANRLLNSEKEKHEHSLVLNFITQRLSELGLSPQILAPRLRQLSNIQHLW 360

Query: 361 TPINAIVPANVHPLKIVAQLHPTPAVAGAARDIACAEIRRYETFERGLYAAPLGWIDSQG 420
           TPI+AIVPAN+HPLKIV QLHPTPAVAGAA+D+ACAEIRRYE+FERGLYAAPLGWIDSQG
Sbjct: 361 TPISAIVPANIHPLKIVGQLHPTPAVAGAAQDVACAEIRRYESFERGLYAAPLGWIDSQG 420

Query: 421 NCEFIVGIRSALIDGDRARLYAGAGIVAGSDPEKEFAE 458
           NCEFIVGIRSALI+GDRARLYAGAGIVAGSDP+KEFAE
Sbjct: 421 NCEFIVGIRSALINGDRARLYAGAGIVAGSDPDKEFAE 458


>Contig589.revised.gene31.protein 
          Length = 509

 Score = 87.8 bits (216), Expect = 3e-018
 Identities = 70/253 (27%), Positives = 122/253 (47%), Gaps = 13/253 (5%)

Query: 215 SVASALERIKSNELSKVVLADILDVS-SNQHFNLLQSLNNLRKTHPNCYIFSTSNGKGQN 273
           SV  A + IK+ ++ +VV++  L    +   F L +SL   R+ +P+ Y+ +  N +   
Sbjct: 245 SVQKAKDYIKAGDIFQVVISQRLSTPYTGDPFALYRSL---RQINPSPYM-AYFNFQDWQ 300

Query: 274 FIGASPERLI---TIHNQQLITDA--LAGSAPRGKTSAEDAANANRLLNSEKERHEHLLV 328
            IG+SPE ++   T  +  +I     +AG+ PRGKT+ +DAA A  LL   KE  EH+++
Sbjct: 301 IIGSSPEVMVKAETAPDGGVIATVRPIAGTRPRGKTTQQDAAFAQDLLEDPKEVAEHVML 360

Query: 329 MDFITQXXXXX---XXXXXXXXXXXXXXSNIQHLWTPINAIVPANVHPLKIVAQLHPTPA 385
           +D                          S++ H+ + +   +  +     ++    P   
Sbjct: 361 VDLGRNDLGRVCQNGSVKVDELMVVERYSHVMHIVSNVVGKLALDKTAWDLLKACFPAGT 420

Query: 386 VAGAARDIACAEIRRYETFERGLYAAPLGWIDSQGNCEFIVGIRSALIDGDRARLYAGAG 445
           V+GA +  A   I   E+  RG+Y+   G+ D +G     + IR+ ++      + AGAG
Sbjct: 421 VSGAPKIRAMEIIHELESSRRGVYSGVYGYYDFEGQLNTAIAIRTMVVHDKTVSVQAGAG 480

Query: 446 IVAGSDPEKEFAE 458
           +VA S+PEKE+ E
Sbjct: 481 LVADSEPEKEYEE 493


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.320    0.136    0.398 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1989623
Number of Sequences: 7432
Number of extensions: 79707
Number of successful extensions: 182
Number of sequences better than 1.0e-003: 4
Number of HSP's better than  0.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 175
Number of HSP's gapped (non-prelim): 4
length of query: 471
length of database: 2,397,140
effective HSP length: 45
effective length of query: 426
effective length of database: 2,062,700
effective search space: 878710200
effective search space used: 878710200
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 92 (40.0 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0036 ID:42 {36976 <--- 38331}
UDP-N-acetylmuramoylalanyl-D-glutamyl-2,
6-diaminopimelate--D-alanyl-D-alanine ligase (murF)
         (451 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig610.revised.gene31.protein 
          Length = 451

 Score =  658 bits (1697), Expect = 0.0
 Identities = 340/450 (75%), Positives = 373/450 (82%)

Query: 1   MSWSVTLNQLIEVLLARPVNISEAALTQVSSGIQTDTRMIKPGEVFLAFRGEKFDGHEFX 60
           M  S TL+QL+EVLLA P+N+SE ALTQVS GIQTD+R +K GEVF+A RG+KFDGH+F 
Sbjct: 1   MRCSATLSQLVEVLLASPINLSETALTQVSCGIQTDSRTLKLGEVFVALRGDKFDGHKFV 60

Query: 61  XXXXXXXXXXXXVDDDYENPGLPVLQVSNTLEAYQKLGRWWRDRFDIPVIXXXXXXXXXX 120
                       VD +YENPG PVL+V +TL+AYQ++GRWWRDRF+IPVI          
Sbjct: 61  PTAIAKGAIAAIVDFEYENPGFPVLRVKDTLKAYQQIGRWWRDRFNIPVIGVTGSVGKTT 120

Query: 121 XXELIAAVLGTKGNVLKTYGNYNNEIGVPKTLLELNAEHDYAVIEMAMRGRGQIAELAQI 180
             ELIAAVLGTKG V KTYGNYNNEIGVPKTLLEL AE+DYAVIEMAMRGRGQIAEL QI
Sbjct: 121 TKELIAAVLGTKGQVHKTYGNYNNEIGVPKTLLELGAENDYAVIEMAMRGRGQIAELTQI 180

Query: 181 ARPTIGVITNVGTAHIELLGSEEAIAEAKCELLAEMPKDSVAILNHDNPLLMATAAKFWS 240
           ARPTIGVITNVGTAHIELLGSEEAIAEAKCELLAEM  DSVAI+NHDNPLLMATAAK W 
Sbjct: 181 ARPTIGVITNVGTAHIELLGSEEAIAEAKCELLAEMAADSVAIINHDNPLLMATAAKVWH 240

Query: 241 GEVLTYGLSGGDVQGSLVDNAIVEVAXXXXXXXXXXXHNATNYLAALAVAKVLGIEWSSL 300
           GEVLTYG SGGD+QG L+DN  +EVA           HNATN+LAALAVAKVLGI+WS+L
Sbjct: 241 GEVLTYGFSGGDIQGQLLDNDQMEVAGIQLPLPLPGRHNATNFLAALAVAKVLGIDWSNL 300

Query: 301 QAGVSVNMPTGRSQRFSLPNDVLILDETYNAAPEAMLAALQLLADTPGKRKIAVLGAMKE 360
           +AGV V+MPTGRSQRF+LPNDV+ILDETYNAAPEAM+A+LQLLADTPGKRKIAVLGAMKE
Sbjct: 301 KAGVEVDMPTGRSQRFTLPNDVIILDETYNAAPEAMIASLQLLADTPGKRKIAVLGAMKE 360

Query: 361 LGERSAQLHQRVGETVRNLKXXXXXXXXXXEDAEAIARSAEGIPSECFATHADLVARLTT 420
           LGERS QLHQRVGETVR L           EDAEA+A SAEGIPSECFATHA+LVARL T
Sbjct: 361 LGERSQQLHQRVGETVRKLNLDGLLVLVDGEDAEAMALSAEGIPSECFATHAELVARLKT 420

Query: 421 FVQGGDRLLFKAAHSVGLDRVVSQLRAEFS 450
           FVQ GDRLLFKAAHSVGLDRVV+QLRAEFS
Sbjct: 421 FVQTGDRLLFKAAHSVGLDRVVNQLRAEFS 450


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.317    0.134    0.376 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1802259
Number of Sequences: 7432
Number of extensions: 64704
Number of successful extensions: 194
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 193
Number of HSP's gapped (non-prelim): 1
length of query: 451
length of database: 2,397,140
effective HSP length: 47
effective length of query: 404
effective length of database: 2,047,836
effective search space: 827325744
effective search space used: 827325744
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 91 (39.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0037 ID:43 {38535 <--- 38981} unknown protein
         (148 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig610.revised.gene30.protein 
          Length = 148

 Score =  156 bits (394), Expect = 2e-039
 Identities = 83/148 (56%), Positives = 109/148 (73%)

Query: 1   MNLLDTFLGRENQAPEVLSSTEAFVAIVLLATALDGYLSYEQERSISCELSRSKPLRNYS 60
           MNL +  LG ENQ    L+S EAF  IVL ATA DGYLS EQ  SI+  LSR K  + Y 
Sbjct: 1   MNLFNAVLGTENQTQGALNSAEAFAVIVLAATASDGYLSVEQANSITFVLSRMKLFKGYP 60

Query: 61  TEAIAQLCEKTLIILRRDGFNALFNLAKESLSPELREAAFAVASDLVLSESHVTEEETNF 120
            E + +L ++ L +++ DGFNALF+ AK+SLS +LRE+AFAVA+DLVL+E  V EEE +F
Sbjct: 61  HEMMNRLFDQILGVIKGDGFNALFDAAKDSLSQDLRESAFAVATDLVLAEGVVAEEEKSF 120

Query: 121 LNDLYQALGISPDIAIRILQTMSLKNQI 148
           LNDLYQALGIS +IA++I+Q + +KN++
Sbjct: 121 LNDLYQALGISREIALQIMQVILIKNRV 148


>Contig568.revised.gene1.protein 
          Length = 350

 Score = 51.6 bits (122), Expect = 6e-008
 Identities = 39/141 (27%), Positives = 61/141 (42%), Gaps = 1/141 (0%)

Query: 1   MNLLDTFLGRENQAPEVLSSTEAFVAIVLLATALDGYLSYEQERSISCELSRSKPLRNYS 60
           M   D        + E LS  EA  AI  +    D  +      S++  L   +    YS
Sbjct: 1   MTKYDKVFNSPKTSEESLSPEEAVAAIATVTAIADSMIEDVDAESLAGILWEFEVFEEYS 60

Query: 61  TEAIAQLCEKTLIILRRDGFNALFNLAKESLSPELREAAFAVASDLVL-SESHVTEEETN 119
            + IA++ ++ L I   +G   LFN AK SLS EL    FA    ++L  E  + + +  
Sbjct: 61  EDEIAEIVDRLLAIAEEEGIGPLFNAAKVSLSEELVLDGFAAGVIVLLDDELAIAKPKQA 120

Query: 120 FLNDLYQALGISPDIAIRILQ 140
           +L  L  AL +  + A  I++
Sbjct: 121 YLKKLQAALDLEDEEAEEIIK 141


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.317    0.132    0.348 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 594906
Number of Sequences: 7432
Number of extensions: 20593
Number of successful extensions: 78
Number of sequences better than 1.0e-003: 3
Number of HSP's better than  0.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 76
Number of HSP's gapped (non-prelim): 3
length of query: 148
length of database: 2,397,140
effective HSP length: 48
effective length of query: 100
effective length of database: 2,040,404
effective search space: 204040400
effective search space used: 204040400
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 86 (37.7 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0040 ID:47 {41960 <--- 43492} unknown protein
         (510 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



 ***** No hits found ******

  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.328    0.143    0.465 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2439493
Number of Sequences: 7432
Number of extensions: 103146
Number of successful extensions: 327
Number of sequences better than 1.0e-003: 0
Number of HSP's better than  0.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 327
Number of HSP's gapped (non-prelim): 0
length of query: 510
length of database: 2,397,140
effective HSP length: 38
effective length of query: 472
effective length of database: 2,114,724
effective search space: 998149728
effective search space used: 998149728
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 92 (40.0 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0041 ID:48 {43542 <--- 44498} hypothetical protein
         (318 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



 ***** No hits found ******

  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.327    0.139    0.421 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1187268
Number of Sequences: 7432
Number of extensions: 41437
Number of successful extensions: 115
Number of sequences better than 1.0e-003: 0
Number of HSP's better than  0.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 115
Number of HSP's gapped (non-prelim): 0
length of query: 318
length of database: 2,397,140
effective HSP length: 42
effective length of query: 276
effective length of database: 2,084,996
effective search space: 575458896
effective search space used: 575458896
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 90 (39.3 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0042 ID:49 {44511 <--- 45458} hypothetical protein (rfbJ)
         (315 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig657.revised.gene28.protein 
          Length = 274

 Score = 53.1 bits (126), Expect = 6e-008
 Identities = 58/247 (23%), Positives = 102/247 (40%), Gaps = 49/247 (19%)

Query: 13  VLIPCRNEALTISQVVSDFRKFLPDS----EIYVYNNCSTDDTAEVATSAGA-------I 61
           VL+P  NE  +I  +   F+     S    ++ + ++ S+D TA+ A            +
Sbjct: 5   VLLPAYNEQESIRPLFKRFQTLQQISNMEIKLILVDDGSSDATAQTALEESQSLGVLINL 64

Query: 62  VCHEAVPGKGNVVR---RMFADI--DADIYVLVDGDNTYETEAVTHLINCLVKGNLDMVV 116
           V H    G G  ++   R F +I  + D    +D DNT   E +  + + ++ G+ D+ +
Sbjct: 65  VQHPKNAGLGEAIKTGFRTFLEISQEGDFLAAMDCDNTQPPELLIKMYDTMIAGSYDIAI 124

Query: 117 GTRRGKTGSAYRPGHR-------------GGNWMLTSFVRMLFGAELKDMLSGYRIFSRR 163
            +R       YR G +             G +W+     R+     ++D   GYR+++R 
Sbjct: 125 ASR-------YRKGSKVIGLSKFREIMSYGASWLFRIAARV---PGVRDYTCGYRLYNRN 174

Query: 164 FVKSFPA-------LSNGFEIETELTVHALELKLPFTEEPTM--YGERPPGSNSK-LKTF 213
           FV              +GF    +L + A  L+    E P +  Y ++P  S  K LKT 
Sbjct: 175 FVSKLDMYYGDNLFTESGFACMIDLLLKAKVLRPKIAEIPMVLRYDQKPSASKMKILKTI 234

Query: 214 TDGWRIL 220
           T   ++L
Sbjct: 235 TRTLKLL 241


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.325    0.140    0.413 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1381054
Number of Sequences: 7432
Number of extensions: 55774
Number of successful extensions: 197
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 197
Number of HSP's gapped (non-prelim): 1
length of query: 315
length of database: 2,397,140
effective HSP length: 43
effective length of query: 272
effective length of database: 2,077,564
effective search space: 565097408
effective search space used: 565097408
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 90 (39.3 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0047 ID:56 {48470 <--- 50065} hypothetical protein
         (531 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig549.revised.gene14.protein 
          Length = 556

 Score =  508 bits (1307), Expect = e-144
 Identities = 295/564 (52%), Positives = 357/564 (62%), Gaps = 44/564 (7%)

Query: 1   MPLSNSVIRRYTPPTCTLEVLAQSSPLSRWMGKPVLRHLTFELRFDDPQLPEENRVPIRG 60
           MPLSNSVIRRYTPPTCTLEV AQSSPLSRWMGK VL+HL+FELRFDDP+LPEE RVPIRG
Sbjct: 1   MPLSNSVIRRYTPPTCTLEVFAQSSPLSRWMGKSVLKHLSFELRFDDPRLPEEQRVPIRG 60

Query: 61  DRDQLEALCDAVTTYVQQFLQQPPDSFRFNVSEL-EDSTKVSTEELTDFHQASLLSKTTK 119
           DR+QLEALCDAVT YVQQFLQQ P+SF  + S   E ST +   EL         +KT  
Sbjct: 61  DREQLEALCDAVTNYVQQFLQQSPESFWVSFSGTHESSTAMGEPELKS------STKTLN 114

Query: 120 SFIPQIPGTKIYLEPGDYLTHNLFLGSLANQASGYVIQLSLLQLFDLATALDEYSTDVMA 179
           SF  Q PG  I LEP  YLTHNLFLGSLAN +SG VIQL+LLQ+FDLA+ALDEYSTDVMA
Sbjct: 115 SFSTQFPGANIRLEPSSYLTHNLFLGSLANHSSGPVIQLTLLQIFDLASALDEYSTDVMA 174

Query: 180 LPSLNNTSSIVRFPAWASXXXXXXXXXGLTPLTWQYANNTKQKDQQTATNSNPNDEQIAL 239
           LP+LN TSS +RFPAWA          G  P+TWQYAN+ ++K+QQTA  S+P   + AL
Sbjct: 175 LPTLNTTSSTLRFPAWAPVAAVLVLGIGFLPITWQYANSIREKEQQTAKTSDPAAVKTAL 234

Query: 240 QP-TLPNFPAPQSELAPANNXXXXXX---XXXXXXXXXXXXXXXXXISPNTSFPGNSPTT 295
           +P T  NFP P+  + P ++                           +P +  P N+ TT
Sbjct: 235 EPSTSLNFPTPEPGIIPPSDNLLGSTPPLSTSTLPQAPLTAPSSSFSAPQSLLPNNAVTT 294

Query: 296 TNS---ALPPNSV--ASKQALNIP--QTNIPPISGNPGITIPGQQVAIQP----NPSG-G 343
           T S    LP N V  + + A       T    I+  P   IPGQ++AI P    NP+G  
Sbjct: 295 TQSKTATLPSNGVMPSLRDATGAASFSTRRSAIANAPSSKIPGQEIAIVPNLGQNPTGPN 354

Query: 344 INSGGVTLKRSLPPRLSTSTSNLSSGIX-XXXXXLATIPNNA--IPQAYSPVTSQAARSR 400
             +G +   R+LPPRLS++TS+L + I       L+TIPNN        SP+TSQ    R
Sbjct: 355 PQAGNLPQLRNLPPRLSSNTSSLPTNISPVSPPSLSTIPNNGGNTRTQTSPLTSQQLDER 414

Query: 401 VN---------------TSPELAETSSLIDGSRSEAKTALPSEIATSNTSTLFDTPQVAE 445
           +N               +S   AE +  ID      KT    E+A   T TLFDTPQVAE
Sbjct: 415 INSLQQPSPGEKPASQLSSSRTAENNPFIDQLGDGRKTPKSREVA---TGTLFDTPQVAE 471

Query: 446 AREFFKKRWQPPSGFVQTLEYSVMLGVDGSIERILPLGKAARDYVDLVGMPAIGEPFVSA 505
           ARE+  KRWQPP+G  Q LEYS+++ VDG++ERI PL KAAR++VD  GMP +G+PFVSA
Sbjct: 472 AREYLSKRWQPPTGLGQALEYSLIVSVDGTVERIFPLNKAAREFVDNAGMPEVGKPFVSA 531

Query: 506 NRSGQMTRIRVLLSPDGKVQTFPE 529
           N+SGQ  RIRV+LSPDGKVQTFP+
Sbjct: 532 NKSGQNVRIRVVLSPDGKVQTFPD 555


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.312    0.129    0.369 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2390245
Number of Sequences: 7432
Number of extensions: 96546
Number of successful extensions: 225
Number of sequences better than 1.0e-003: 1
Number of HSP's better than  0.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 219
Number of HSP's gapped (non-prelim): 1
length of query: 531
length of database: 2,397,140
effective HSP length: 48
effective length of query: 483
effective length of database: 2,040,404
effective search space: 985515132
effective search space used: 985515132
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 92 (40.0 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0048 ID:57 {50091 <--- 50696} hypothetical protein
         (201 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig549.revised.gene12.protein 
          Length = 201

 Score =  320 bits (821), Expect = 8e-089
 Identities = 162/201 (80%), Positives = 166/201 (81%)

Query: 1   MLKVMQSAADPATPNSQWEDLIKLPTPNVVEWDNIKXXXXXXXXXXXXXXGIGSEAMLSA 60
           MLKVM SAA+ ATPNSQWEDLIKLP PN V+WDNIK              GIGSEAMLSA
Sbjct: 1   MLKVMHSAANSATPNSQWEDLIKLPAPNTVQWDNIKTQLDLVLLALETLTGIGSEAMLSA 60

Query: 61  ATSLNLESKVPDRVALWRLRQSNPLRKGQGGRKKLDVEEARSLVLIICYLAKQHQELIRR 120
           AT LNLES+VPDRVALWRLRQSNPLRKGQGGRKKLDVEEARSLVLIICYLAKQHQELIRR
Sbjct: 61  ATDLNLESRVPDRVALWRLRQSNPLRKGQGGRKKLDVEEARSLVLIICYLAKQHQELIRR 120

Query: 121 AVGLLEQMAEKNREPHQAALLGDYIDAFCNTYQERMEEDEQISTDXXXXXXXXXXXXXXF 180
           AVGLLEQMAE NREPHQAALLGDYIDAFCNTYQERMEEDE+ISTD              F
Sbjct: 121 AVGLLEQMAENNREPHQAALLGDYIDAFCNTYQERMEEDEKISTDLLTNLALKLLVDLLF 180

Query: 181 YSAPGGHRRLWLALIDRSAKF 201
           YSAPGGHRRLWLALIDRS KF
Sbjct: 181 YSAPGGHRRLWLALIDRSTKF 201


>Contig492.revised.gene16.protein 
          Length = 208

 Score = 83.6 bits (205), Expect = 2e-017
 Identities = 51/149 (34%), Positives = 79/149 (52%), Gaps = 6/149 (4%)

Query: 53  GSEAMLSAATSLNLESKVPDRVALWRLRQSNPLRKGQGGRKKLDVEEARSLVLIICYLAK 112
           GSEA+LS A  L+L+  V DRV LWR+R SNPLR+    R+ L + EA++LV+I CY+A+
Sbjct: 57  GSEAILSFAQELDLKGIVKDRVNLWRMRSSNPLRRAH-IRRPLTIMEAKALVVIACYIAR 115

Query: 113 QHQELIRRAVGLLEQMAEKNREPHQAALLGDYIDAFCNTYQERMEEDEQ-----ISTDXX 167
           +   +IR+ + + +QM EK     Q   L +Y++ F   ++ RM           S +  
Sbjct: 116 RLTVVIRQLLMICQQMEEKQIPLEQNLRLSNYLERFRAHFKSRMNARRSGVLALTSDEKL 175

Query: 168 XXXXXXXXXXXXFYSAPGGHRRLWLALID 196
                       F +   G +R W++L D
Sbjct: 176 DELAINLLGQLLFCTGTAGMQRFWISLFD 204


  Database: Npunctiforme_protein
    Posted date:  Mar 16, 2002 12:41 PM
  Number of letters in database: 2,397,140
  Number of sequences in database:  7432
  
Lambda     K      H
   0.317    0.133    0.390 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 814599
Number of Sequences: 7432
Number of extensions: 25246
Number of successful extensions: 76
Number of sequences better than 1.0e-003: 2
Number of HSP's better than  0.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 73
Number of HSP's gapped (non-prelim): 2
length of query: 201
length of database: 2,397,140
effective HSP length: 43
effective length of query: 158
effective length of database: 2,077,564
effective search space: 328255112
effective search space used: 328255112
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 88 (38.5 bits)
BLASTP 2.1.3 [Apr-1-2001]


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= all0049 ID:60 {51283 <--- 53319} DNA mismatch repair protein
MutS (mutS)
         (678 letters)

Database: Npunctiforme_protein
           7432 sequences; 2,397,140 total letters



>Contig549.revised.gene9.protein 
          Length = 805

 Score = 1014 bits (2623), Expect = 0.0
 Identities = 525/684 (76%), Positives = 571/684 (82%), Gaps = 7/684 (1%)

Query: 1   MAELRTYPELEQEIHRCIDERGQVTDRASTKLGDIRTELRKLRSQITQKLQNILQVKSNA 60
           +A+LRTYPELEQEIHRCIDER QVTDRAS KLG+IRT+LR+LRSQITQKLQNILQ KS A
Sbjct: 121 VADLRTYPELEQEIHRCIDERAQVTDRASQKLGEIRTDLRRLRSQITQKLQNILQAKSGA 180

Query: 61  VQEQLITQRGDRFVIPVKAPQKDAIPGIVHDTSTSGATLYIEPNSVVPMGNQLRQTIRKE 120
           VQEQLITQR DRFVIPVKAPQKDAIPGIVHDTSTSGATLY+EPNSVVP+GNQLRQ IRKE
Sbjct: 181 VQEQLITQRSDRFVIPVKAPQKDAIPGIVHDTSTSGATLYVEPNSVVPLGNQLRQIIRKE 240

Query: 121 QAEEEAIRRALTEKVAAVKPDLERLLAIVTTLDMATARARYSLWLKANPPRFIDRQEQEI 180
           QAEEEAIRR LTE+VAAVKPDLERLLAI TTLD+ATAR+RYS WL ANPPRFI RQ+ E 
Sbjct: 241 QAEEEAIRRILTEQVAAVKPDLERLLAIATTLDLATARSRYSYWLGANPPRFIQRQDSET 300

Query: 181 ITLRQLHHPLLVWQQQHEQGHAVIPVDLLISPHIRVVTITGPNXXXXXXXXXXXXXXXXM 240
           ITLR L HPLLVWQQQHEQG  V+PVDLLI+P IRVVTITGPN                M
Sbjct: 301 ITLRNLRHPLLVWQQQHEQGQPVVPVDLLINPLIRVVTITGPNTGGKTVTLKTLGLAALM 360

Query: 241 AKVGLFVPAREPVEMPWFDQVLADIGDEQSLQQSLSTFSGHIRRISRILNALGT------ 294
           AKVGLFVPAREPVE+PWFD+VLADIGDEQSLQQSLSTFSGHIRRISRIL ALG       
Sbjct: 361 AKVGLFVPAREPVEIPWFDKVLADIGDEQSLQQSLSTFSGHIRRISRILEALGNGESGSE 420

Query: 295 -GEQDLETPNSLVLLDEVGAGTDPAEGSALAIALLQYLADHAQLTVATTHFGELKALKYE 353
            GE+++  P SLVLLDEVGAGTDP EGSALAIALLQYLA+HAQLT+ATTHFGELKALKYE
Sbjct: 421 DGEKEMPNPQSLVLLDEVGAGTDPVEGSALAIALLQYLANHAQLTIATTHFGELKALKYE 480

Query: 354 DQRFENASVEFDDATLSPTYRLLWGIPGRSNALAIALRLGLKAEVVEQAKTQVGEATDEV 413
           D+RFENASVEFD++TLSPTYRLLWGIPGRSNAL IALRLGLK EVV+QAKTQVGEATDEV
Sbjct: 481 DERFENASVEFDESTLSPTYRLLWGIPGRSNALTIALRLGLKPEVVQQAKTQVGEATDEV 540

Query: 414 NLVIAGLEAQRRRQETKAAEAQKILQQAERLYKEVSNKAAALQEREQSLKASQEIAVQQA 473
           N VIAGLEAQRRRQETKAAEAQ +LQQAERLYKEVS KAA+L+ERE SL+ASQEIAVQQA
Sbjct: 541 NQVIAGLEAQRRRQETKAAEAQSLLQQAERLYKEVSAKAASLEERESSLRASQEIAVQQA 600

Query: 474 ITQAKGEIAKVIRRLXXXXXXXXXXXXXXNNLHXXXXXXXXXXXXXXXXGFVPKVGDRIR 533
           I QAKGEIA+VIRRL              N L+                GF+PKVGDR+R
Sbjct: 601 IVQAKGEIAQVIRRLQKGTPTAQEAQQATNALNQIGQLYQPATPAKPKAGFMPKVGDRVR 660

Query: 534 ISQFGQTADVLTAPDEDGELTVRFGIMKMTVKLEDIESLDGQKPEXXXXXXXXXXXXXXX 593
           I + GQ ADV+ APDEDGEL+VRFG+MKMTVKL+D+ESLDGQKPE               
Sbjct: 661 IPKLGQIADVIAAPDEDGELSVRFGLMKMTVKLQDVESLDGQKPEPIVKAKPAPAAVTPP 720

Query: 594 XXXXXXXRTSKNTVDLRGKRVADAEYILDKAISEATGPIWIIHGHGTGKLRQGVHTFLEQ 653
                  RTSKNT+DLRGKRVADAEYILDKAISEATGPIWIIHG+GTGKLRQGVH FL+Q
Sbjct: 721 AQSVPEIRTSKNTIDLRGKRVADAEYILDKAISEATGPIWIIHGYGTGKLRQGVHAFLQQ 780

Query: 654 HPRVSRHEPAEQSDGGSGVTIAHI 677
           HPRV+ +EPAEQ+DGG+GVT+AHI
Sbjct: 781 HPRVNNYEPAEQADGGTGVTVAHI 804