Medicago
BLAST2 result
BLASTP 2.2.2 [Dec-14-2001]


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= AC140773.4 + phase: 0 /pseudo
         (1194 letters)

Database: sprot 
           164,201 sequences; 59,974,054 total letters

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

POL_MLVMO (P03355) Pol polyprotein [Contains: Protease (EC 3.4.2...    37  0.42
POL_MLVCB (P08361) Pol polyprotein [Contains: Reverse transcript...    37  0.42
POL_AVIRE (P03360) Pol polyprotein [Contains: Reverse transcript...    37  0.42
POL_MLVFP (P26808) Pol polyprotein [Contains: Protease (EC 3.4.2...    36  0.54
POL_MLVFF (P26809) Pol polyprotein [Contains: Protease (EC 3.4.2...    36  0.54
POL_MLVF5 (P26810) Pol polyprotein [Contains: Protease (EC 3.4.2...    36  0.54
POL_MLVRK (P31795) Pol polyprotein [Contains: Protease (EC 3.4.2...    36  0.71
POL_MLVRD (P11227) Pol polyprotein [Contains: Protease (EC 3.4.2...    36  0.71
POL3_MOUSE (P11367) Retrovirus-related Pol polyprotein (Endonucl...    36  0.71
RPC5_YEAST (P07703) DNA-directed RNA polymerases I and III 40 kD...    35  1.2
POL_GALV (P21414) Pol polyprotein [Contains: Protease (EC 3.4.23...    35  1.2
Y275_HAEIN (P43975) Hypothetical protein HI0275                        35  1.6
POL_FENV1 (P31792) Pol polyprotein [Contains: Reverse transcript...    35  1.6
POL_BAEVM (P10272) Pol polyprotein [Contains: Protease (EC 3.4.2...    35  1.6
POL_MLVAV (P03356) Pol polyprotein [Contains: Protease (EC 3.4.2...    33  3.5
POL_MLVAK (P03357) Pol polyprotein [Contains: Reverse transcript...    33  3.5
LEXA_BACHD (Q9KAD3) LexA repressor (EC 3.4.21.88)                      33  6.0
YL52_CAEEL (P34431) Hypothetical protein F44E2.2 in chromosome III     32  7.9

>POL_MLVMO (P03355) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1199

 Score = 36.6 bits (83), Expect = 0.42
 Identities = 17/41 (41%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ WIEA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 937  FSGWIEAFPTKKETAKVVTKKLLEEIFPRFGMPQVLGTDNG 977


>POL_MLVCB (P08361) Pol polyprotein [Contains: Reverse
            transcriptase/ribonuclease H (EC 2.7.7.49) (EC 3.1.26.4)
            (RT); Integrase (IN)] (Fragment)
          Length = 282

 Score = 36.6 bits (83), Expect = 0.42
 Identities = 17/41 (41%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ WIEA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 23   FSGWIEAFPTKKETAKVVTKKLLEEIFPRFGMPQVLGTDNG 63


>POL_AVIRE (P03360) Pol polyprotein [Contains: Reverse
            transcriptase/ribonuclease H (EC 2.7.7.49) (EC 3.1.26.4)
            (RT); Integrase (IN)] (Fragment)
          Length = 473

 Score = 36.6 bits (83), Expect = 0.42
 Identities = 18/41 (43%), Positives = 24/41 (57%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T + VI  +   II RFG+P  I +D G
Sbjct: 216  FSGWVEAYPAKRETSQVVIKHLILDIIPRFGLPVQIGSDNG 256


>POL_MLVFP (P26808) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1204

 Score = 36.2 bits (82), Expect = 0.54
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 942  FSGWVEAFPTKKETAKVVTKKLLEEIFPRFGMPQVLGTDNG 982


>POL_MLVFF (P26809) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1204

 Score = 36.2 bits (82), Expect = 0.54
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 942  FSGWVEAFPTKKETAKVVTKKLLEEIFPRFGMPQVLGTDNG 982


>POL_MLVF5 (P26810) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1204

 Score = 36.2 bits (82), Expect = 0.54
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 942  FSGWVEAFPTKKETAKVVTKKLLEEIFPRFGMPQVLGTDNG 982


>POL_MLVRK (P31795) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)] (Fragment)
          Length = 581

 Score = 35.8 bits (81), Expect = 0.71
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 322  FSGWVEAFPTKHETAKIVTKKLLEEIFPRFGMPQVLGTDNG 362


>POL_MLVRD (P11227) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1196

 Score = 35.8 bits (81), Expect = 0.71
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 937  FSGWVEAFPTKHETAKIVTKKLLEEIFPRFGMPQVLGTDNG 977


>POL3_MOUSE (P11367) Retrovirus-related Pol polyprotein (Endonuclease)
            (Fragment)
          Length = 390

 Score = 35.8 bits (81), Expect = 0.71
 Identities = 16/41 (39%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T + V   + + I  RFG+P+ + TD G
Sbjct: 146  FSGWVEAFPTKHETAKIVTKKLLEEIFPRFGMPQVLGTDNG 186


>RPC5_YEAST (P07703) DNA-directed RNA polymerases I and III 40 kDa
           polypeptide (EC 2.7.7.6) (AC40) (C37)
          Length = 335

 Score = 35.0 bits (79), Expect = 1.2
 Identities = 31/143 (21%), Positives = 59/143 (40%), Gaps = 14/143 (9%)

Query: 34  KIGLYDSDLKPHNVILTNYEGSSGNSLGAIKLELMVGSTKRITTFMVVPSKANFNVLLGR 93
           ++ +   D +  N  L N + S  N+   I +  +         F       N +V+   
Sbjct: 41  EVNISSLDAREANFDLINIDTSIANAFRRIMISEVPSVAAEYVYFF-----NNTSVIQDE 95

Query: 94  EWIHGVGAVPSTVHQRIAIWKEDGLVENVE-ADQSYFLAEVNTITKRNFDKQLAHIAPVI 152
              H +G VP  V   +  W +  L ++ +  D++  +  +N    RN D      AP  
Sbjct: 96  VLAHRIGLVPLKVDPDMLTWVDSNLPDDEKFTDENTIVLSLNVKCTRNPD------APKG 149

Query: 153 SPGPKQMASNDEIYS--MKLQPE 173
           S  PK++ +N  +Y+  +K +P+
Sbjct: 150 STDPKELYNNAHVYARDLKFEPQ 172


>POL_GALV (P21414) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1165

 Score = 35.0 bits (79), Expect = 1.2
 Identities = 17/41 (41%), Positives = 24/41 (58%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T   V   I + I+ RFGIP+ + +D G
Sbjct: 904  FSGWVEAFPTKTETALIVCKKILEEILPRFGIPKVLGSDNG 944


>Y275_HAEIN (P43975) Hypothetical protein HI0275
          Length = 551

 Score = 34.7 bits (78), Expect = 1.6
 Identities = 30/113 (26%), Positives = 52/113 (45%), Gaps = 3/113 (2%)

Query: 35  IGLYDSDLKPHNVILTNYEGSSGNSLGAIKLELMVGSTKRITTFMVVPSKANFNVLLGRE 94
           + L +S L PH    +  +     S+   + + +  S  R+ TF     K+ F  L G  
Sbjct: 215 VTLMESTLNPHQFAFSQ-QSIPPLSMFEPQNDTVFASPLRVHTFAGATWKSEFAFLAGVP 273

Query: 95  WIHGVGAVPSTVHQRIAIWKEDGLVENVEADQSYFLAEVNTITKRNFDKQLAH 147
                GA+ S V   +    + GLV+N++A Q YF   ++  TK N++ + A+
Sbjct: 274 STD-FGALASGVFYSVVPHLQSGLVKNLKA-QGYFCVALSPFTKGNYNAKSAY 324


>POL_FENV1 (P31792) Pol polyprotein [Contains: Reverse
            transcriptase/ribonuclease H (EC 2.7.7.49) (EC 3.1.26.4)
            (RT); Integrase (IN)] (Fragment)
          Length = 1046

 Score = 34.7 bits (78), Expect = 1.6
 Identities = 16/41 (39%), Positives = 23/41 (56%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P +  T   V   I + I  RFG+P+ I +D G
Sbjct: 789  FSGWVEAYPTRQETAHMVAKKILEEIFPRFGLPKVIGSDNG 829


>POL_BAEVM (P10272) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1189

 Score = 34.7 bits (78), Expect = 1.6
 Identities = 16/41 (39%), Positives = 23/41 (56%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P +  T   V   I + I  RFG+P+ I +D G
Sbjct: 932  FSGWVEAFPTRQETAHIVAKKILEEIFPRFGLPKVIGSDNG 972


>POL_MLVAV (P03356) Pol polyprotein [Contains: Protease (EC 3.4.23.-);
            Reverse transcriptase/ribonuclease H (EC 2.7.7.49) (EC
            3.1.26.4) (RT); Integrase (IN)]
          Length = 1196

 Score = 33.5 bits (75), Expect = 3.5
 Identities = 15/41 (36%), Positives = 23/41 (55%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T   V   + + I  RFG+P+ + +D G
Sbjct: 937  FSGWVEAFPTKRETARVVSKKLLEEIFPRFGMPQVLGSDNG 977


>POL_MLVAK (P03357) Pol polyprotein [Contains: Reverse
            transcriptase/ribonuclease H (EC 2.7.7.49) (EC 3.1.26.4)
            (RT); Integrase (IN)] (Fragment)
          Length = 843

 Score = 33.5 bits (75), Expect = 3.5
 Identities = 15/41 (36%), Positives = 23/41 (55%)

Query: 1154 FTKWIEAIPLKDVTQEEVISFIQKFIIYRFGIPETITTDQG 1194
            F+ W+EA P K  T   V   + + I  RFG+P+ + +D G
Sbjct: 585  FSGWVEAFPTKRETARVVSKKLLEEIFPRFGMPQVLGSDNG 625


>LEXA_BACHD (Q9KAD3) LexA repressor (EC 3.4.21.88)
          Length = 207

 Score = 32.7 bits (73), Expect = 6.0
 Identities = 18/55 (32%), Positives = 32/55 (57%), Gaps = 3/55 (5%)

Query: 154 PGPKQMASNDEIYSMKLQPEAGFVWEKEFRDHDFVMVNQQEAQLDNEDSLVTRAQ 208
           P P+Q+ +ND  Y++++Q ++  + E    D D V+V QQ+   DN D +V   +
Sbjct: 109 PLPEQLTANDNTYALRIQGDS--MIEAGIFDGDLVIVRQQQT-ADNGDIIVAMTE 160


>YL52_CAEEL (P34431) Hypothetical protein F44E2.2 in chromosome III
          Length = 2186

 Score = 32.3 bits (72), Expect = 7.9
 Identities = 17/43 (39%), Positives = 27/43 (62%), Gaps = 1/43 (2%)

Query: 1153 LFTKWIEAIPLKDVTQEEVI-SFIQKFIIYRFGIPETITTDQG 1194
            LFTK+  A+P+ D   E V+ +F++++ I    IP  + TDQG
Sbjct: 1561 LFTKYGTAVPIPDKKAETVLKAFVERWAIGEGRIPLKLLTDQG 1603


  Database: sprot
    Posted date:  Nov 25, 2004 10:54 AM
  Number of letters in database: 59,974,054
  Number of sequences in database:  164,201
  
Lambda     K      H
   0.348    0.153    0.528 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 123,997,876
Number of Sequences: 164201
Number of extensions: 4803352
Number of successful extensions: 15675
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 15658
Number of HSP's gapped (non-prelim): 20
length of query: 1194
length of database: 59,974,054
effective HSP length: 122
effective length of query: 1072
effective length of database: 39,941,532
effective search space: 42817322304
effective search space used: 42817322304
T: 11
A: 40
X1: 14 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 38 (21.8 bits)
S2: 72 (32.3 bits)


Medicago: description of AC140773.4