BLASTP 2.2.18 [Mar-02-2008]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0001.0437.p
         (921 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309795|ref|YP_003773887.1| DNA polymerase I protein [Herba...  1822   0.0  

>gi|300309795|ref|YP_003773887.1| DNA polymerase I protein
           [Herbaspirillum seropedicae SmR1]
          Length = 920

 Score = 1822 bits (4719), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 888/921 (96%), Positives = 907/921 (98%), Gaps = 1/921 (0%)

Query: 1   MQKTLLLVDGSSYLYRAFHALPDMRNAEGAPTGALYGIINMLRRLRNDYPASYVACVFDA 60
           MQKTLLLVDGSSYLYRAFHALPDMRNAEGAPTGALYGIINMLRRLRNDYPASYVACVFDA
Sbjct: 1   MQKTLLLVDGSSYLYRAFHALPDMRNAEGAPTGALYGIINMLRRLRNDYPASYVACVFDA 60

Query: 61  KGKTFRDDLYPDYKATRKSMPEDLALQIEPIHAAVRALGWPILMVEGIEADDVIGTLSVQ 120
           KGKTFRDDLYPDYKATRKSMPEDLALQIEPIHAAVRALGWPILMVEGIEADDVIGTLSVQ
Sbjct: 61  KGKTFRDDLYPDYKATRKSMPEDLALQIEPIHAAVRALGWPILMVEGIEADDVIGTLSVQ 120

Query: 121 ATSAGLDTIVSTGDKDMAQLVNEHVTLVNTMSNEVLDIAGVTAKFGVPPERIVDYLSLIG 180
           AT+AGLDTIVSTGDKDMAQLVNEHVTLVNTMSNEVLDIAGVTAKFGVPPERIVDYLSLIG
Sbjct: 121 ATAAGLDTIVSTGDKDMAQLVNEHVTLVNTMSNEVLDIAGVTAKFGVPPERIVDYLSLIG 180

Query: 181 DTVDNVPGVEKCGPKTAVKWLTAYGSLDGVMANADKITGVVGENLRRALDWLPQGRVLVT 240
           DTVDNVPGVEKCGPKTAVKWLTAYG+LDGVMANADKI+GVVGENLRRALDWLPQGRVLVT
Sbjct: 181 DTVDNVPGVEKCGPKTAVKWLTAYGTLDGVMANADKISGVVGENLRRALDWLPQGRVLVT 240

Query: 241 VKTDCDLSEHMKSILESLTMQPQDKEVLKELFTRYNFRTWLRELSEGADAAAGAKAPMVG 300
           VKTDCDLS HM SILESLTMQPQDK+VLKELFTRYNFRTWLRELS+GA+A A +KAPMVG
Sbjct: 241 VKTDCDLSAHMSSILESLTMQPQDKDVLKELFTRYNFRTWLRELSDGAEAGA-SKAPMVG 299

Query: 301 AAAAAALETPAQGGLFAAAPKVEYETVLTDAQLDQWIAAINAAELTAVDTETTSLEAMQA 360
           A+AAAALE PAQGGLFAAAPKVEYETVLTDAQLDQWIA INAAELTAVDTETTSLEAMQA
Sbjct: 300 ASAAAALEAPAQGGLFAAAPKVEYETVLTDAQLDQWIATINAAELTAVDTETTSLEAMQA 359

Query: 361 ELVGISLCCEPGRAAYIPVAHNYQDAPAQLSREHVLDKLKPWLEDASKPKLGQHLKYDSH 420
           ELVGISLCCEPGRAAYIPVAHNYQDAP QLSR+HVL+KLKPWLEDASKPKLGQHLKYDSH
Sbjct: 360 ELVGISLCCEPGRAAYIPVAHNYQDAPVQLSRQHVLEKLKPWLEDASKPKLGQHLKYDSH 419

Query: 421 IFANYGVRLAGVKHDTLLESYVFESHRPHDMDSLAARHLERKTITYAEVCGKGASQIGFN 480
           IFANYGVRLAGVKHDTLLESYVFESHRPHDMDSLAARHLERKTITYAEVCGKGASQIGFN
Sbjct: 420 IFANYGVRLAGVKHDTLLESYVFESHRPHDMDSLAARHLERKTITYAEVCGKGASQIGFN 479

Query: 481 EVPIERATEYAAEDAEVTLALHQAMWPQIEHDDKLRFIYEKIEVPTSVVLQKIERNGVLI 540
           EV IERATEYAAEDAEVTLALHQAMWPQIEHDDKLRFIYEKIEVPTSVVLQKIERNGVLI
Sbjct: 480 EVAIERATEYAAEDAEVTLALHQAMWPQIEHDDKLRFIYEKIEVPTSVVLQKIERNGVLI 539

Query: 541 DSERLGQQSHDLGKRMLEIEQQAYDLAGQPFNLNSPKQLGEILFGKLELPVVKKTASGAP 600
           DSERLGQQSHDLGKRMLEIEQQAYDLAGQPFNLNSPKQLGEILFGKLELPVVKKTASGAP
Sbjct: 540 DSERLGQQSHDLGKRMLEIEQQAYDLAGQPFNLNSPKQLGEILFGKLELPVVKKTASGAP 599

Query: 601 STDEEVLQKLAEDYPLPKVLLDYRGLSKLKSTYTDKLPKMINPATGRVHTNYAQAVAVTG 660
           STDEEVLQKLAEDYPLPKVLLDYRGL+KLKSTYTDKLPKM+NPATGRVHTNYAQAVAVTG
Sbjct: 600 STDEEVLQKLAEDYPLPKVLLDYRGLAKLKSTYTDKLPKMVNPATGRVHTNYAQAVAVTG 659

Query: 661 RLASNDPNLQNIPIRTAEGRRIREAFVAPEGSVIVSADYSQIELRIMAHISEDENMLKAF 720
           RL+SNDPNLQNIPIRTAEGRRIREAFVAPEGSVIVSADYSQIELRIMAHISEDENMLKAF
Sbjct: 660 RLSSNDPNLQNIPIRTAEGRRIREAFVAPEGSVIVSADYSQIELRIMAHISEDENMLKAF 719

Query: 721 ANNEDIHKATAAEIFGIAPEQVESEQRRYAKVINFGLIYGMSAFGLAGNLGIERAAAQMY 780
           ANNEDIH+ATAAEIFGIAPEQVESEQRRYAKVINFGLIYGMSAFGLA NLGIERAAAQMY
Sbjct: 720 ANNEDIHRATAAEIFGIAPEQVESEQRRYAKVINFGLIYGMSAFGLASNLGIERAAAQMY 779

Query: 781 IDKYFMRFSGVKRYMDETRMQAKAHGYVETVFGRRLWLPEINSPNGPRRQGAERAAINAP 840
           IDKYFMRFSGVKRYMDETR+QAKA GYVETVFGRRLWLPEINSPNGPRRQGAERAAINAP
Sbjct: 780 IDKYFMRFSGVKRYMDETRLQAKARGYVETVFGRRLWLPEINSPNGPRRQGAERAAINAP 839

Query: 841 MQGTAADLIKLAMIAVQGWLEQAGLQTRMIMQVHDELVLEVPQQELDLVREKLPELMKNV 900
           MQGTAADLIK+AMIAVQ WLE   LQTRMIMQVHDELVLEVPQQEL++VREKLPELMKNV
Sbjct: 840 MQGTAADLIKMAMIAVQDWLETNSLQTRMIMQVHDELVLEVPQQELEMVREKLPELMKNV 899

Query: 901 AELKVPLLAEVGIGKNWDQAH 921
           AELKVPLLAEVGIGKNWD+AH
Sbjct: 900 AELKVPLLAEVGIGKNWDEAH 920


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.317    0.133    0.383 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 2,768,486
Number of extensions: 115663
Number of successful extensions: 359
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 357
Number of HSP's successfully gapped: 1
Length of query: 921
Length of database: 1,619,870
Length adjustment: 94
Effective length of query: 827
Effective length of database: 1,174,780
Effective search space: 971543060
Effective search space used: 971543060
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 135 (56.6 bits)