TBLASTN 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= AC138012.7 + phase: 0 /pseudo
         (990 letters)

Database: MTGI 
           36,976 sequences; 27,044,181 total letters

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

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

TC89912 weakly similar to PIR|B84512|B84512 probable retroelemen...   222  5e-58
CB893805 similar to GP|10177935|d copia-type polyprotein {Arabid...    34  0.24
BG644690 weakly similar to GP|18542179|gb putative pol protein {...    33  0.54
TC78638 similar to GP|22087278|gb|AAM90909.1 p44/SSL1-like prote...    29  7.8

>TC89912 weakly similar to PIR|B84512|B84512 probable retroelement pol
           polyprotein [imported] - Arabidopsis thaliana, partial
           (10%)
          Length = 814

 Score =  222 bits (566), Expect = 5e-58
 Identities = 127/164 (77%), Positives = 135/164 (81%)
 Frame = +2

Query: 811 KL*SGF*GI*MCR*RAV*STQGQLKMKTLWRGMLMRIMRAT*TLENPCRVLCLLFMARRL 870
           KL*SG * I*M  *RAV*STQ QLK KTLWRGMLM+ MRA  T EN  RVLCLL MAR L
Sbjct: 2   KL*SGC*SI*MSL*RAV*STQKQLKRKTLWRGMLMQTMRAMWTQENLYRVLCLLSMARLL 181

Query: 871 VGRQINNLWWHYLQLKRSTSHLLKV*RRPYG*KG*LVS*ELLKNV*GCIVIVKVPFT*QI 930
           VGRQINN W HY QLKRST  L K *+ PYG*K *LVS*ELLKN+*  IVIVKVPFT +I
Sbjct: 182 VGRQINNPW*HYQQLKRSTLPL*KG*KMPYG*KV*LVS*ELLKNM*RYIVIVKVPFTWRI 361

Query: 931 IKCIMKGQSTLTFACTLLET*LNQKRLWLRKWHRRKIRRMCSPS 974
           IKCIM+G STLTFACTLLET*LNQKRLW +KWHR++IRRMC PS
Sbjct: 362 IKCIMRGLSTLTFACTLLET*LNQKRLWWKKWHRKRIRRMCLPS 493


>CB893805 similar to GP|10177935|d copia-type polyprotein {Arabidopsis
           thaliana}, partial (14%)
          Length = 778

 Score = 34.3 bits (77), Expect = 0.24
 Identities = 23/71 (32%), Positives = 38/71 (53%)
 Frame = +1

Query: 492 R*MKKWIHWKGTKLGNL*NYLITKG*LDASGSSRKRMAFRVLKVQGIKQDLWQRVSLKCR 551
           +*+ +W   K   LG+   Y   +  LD++GS  K+   R+ +++ IK DLW R +L   
Sbjct: 88  Q*IMRWRQQKEIILGS*QTYDQVQKPLDSNGSL-KQS*MRMERLRSIKLDLWPRGTLNNM 264

Query: 552 GSTTTRSFHRW 562
             TT +  H+W
Sbjct: 265 VLTTPKFLHQW 297


>BG644690 weakly similar to GP|18542179|gb putative pol protein {Zea mays},
           partial (22%)
          Length = 629

 Score = 33.1 bits (74), Expect = 0.54
 Identities = 35/94 (37%), Positives = 43/94 (45%), Gaps = 2/94 (2%)
 Frame = -3

Query: 581 SWNKWM*RPLSYMVTLKRQSTWSNRKVL--WRTSLRCVF*RNLCMG*SKALGNGIVGLMS 638
           S  KWM*R    M   KR+   SN   L   R  + C  *    M *SK   +G+ G  S
Sbjct: 285 SCTKWM*RVHLLMEISKRRCLSSNLLDLKMQRYQIMCSD*IRHYMV*SKLQEHGMKGCQS 106

Query: 639 FF*RPVL*EADMILVCTC*RRMRKSFSIFFYMWM 672
           F *R V  EA   + C+ *+  +   S F  MWM
Sbjct: 105 FC*RMVSKEAR*TIPCSY*KENKNCLS-FKCMWM 7


>TC78638 similar to GP|22087278|gb|AAM90909.1 p44/SSL1-like protein
            {Arabidopsis thaliana}, partial (85%)
          Length = 2060

 Score = 29.3 bits (64), Expect = 7.8
 Identities = 16/63 (25%), Positives = 32/63 (50%)
 Frame = +3

Query: 129  NFVNIAY*ANNIG*SLEVACIILVDLLSMCIRIFGVLLRLLLMGEVPIFFLSLMIILGEC 188
            NF ++A  ANN    +     + V +++  +R  G+L +LLL  +   + L + ++   C
Sbjct: 1494 NFPSLAQNANNNSALIVTCTFMRVYIIAQAVRASGILSQLLLPNDFQPYALDIKLLSKWC 1673

Query: 189  GSL 191
             +L
Sbjct: 1674 STL 1682


  Database: MTGI
    Posted date:  Oct 22, 2004  3:39 PM
  Number of letters in database: 27,044,181
  Number of sequences in database:  36,976
  
Lambda     K      H
   0.370    0.164    0.642 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,012,905
Number of Sequences: 36976
Number of extensions: 495476
Number of successful extensions: 6480
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 1433
Number of HSP's successfully gapped in prelim test: 214
Number of HSP's that attempted gapping in prelim test: 4945
Number of HSP's gapped (non-prelim): 1861
length of query: 990
length of database: 9,014,727
effective HSP length: 106
effective length of query: 884
effective length of database: 5,095,271
effective search space: 4504219564
effective search space used: 4504219564
frameshift window, decay const: 50,  0.1
T: 13
A: 40
X1: 14 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 36 (21.8 bits)
S2: 63 (28.9 bits)