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= AC123593.2 + phase: 0 /pseudo
         (199 letters)

Database: GMGI 
           63,676 sequences; 37,918,896 total letters

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

                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

TC211561 weakly similar to UP|O22675 (O22675) Reverse transcript...    62  2e-10
CO982349                                                               55  2e-08
TC212055                                                               52  1e-07
AW757033                                                               50  5e-07
BI972659                                                               37  0.005
BI470652 similar to PIR|T17102|T171 RNA-directed DNA polymerase ...    30  0.73
TC233727 similar to UP|Q9FKH8 (Q9FKH8) Similarity to non-LTR ret...    27  4.8
TC232146                                                               27  4.8

>TC211561 weakly similar to UP|O22675 (O22675) Reverse transcriptase
           (Fragment) , partial (59%)
          Length = 1077

 Score = 62.0 bits (149), Expect = 2e-10
 Identities = 45/137 (32%), Positives = 65/137 (46%), Gaps = 21/137 (15%)
 Frame = +1

Query: 45  RLGLCGKRVGWIKDRVFGGNVSILVNGSPTEEIS-----KQGDHLTPFLCSRRF**VDVQ 99
           R+    K + WI++ V   ++S+LVNGSPT E       +QGD LTPFL +     +  +
Sbjct: 136 RMDFSPKWIKWIEECVKSASISVLVNGSPTAEFLPQRGLRQGDPLTPFLFN-----IVAE 300

Query: 100 CGESK*V*GF*GC*RRDGDFTS----------------SYADDTLCIGETTVENLYTLKA 143
                   G  G  RR  +                    YADDT+  GE   EN+  +K 
Sbjct: 301 --------GLNGLMRRAVEENLYKPYLVGANGVPISILQYADDTIFFGEAAKENVEAIKV 456

Query: 144 MLREFEMASSLKVNFLK 160
           +LR FE+ S+L++NF K
Sbjct: 457 ILRSFELVSNLRINFAK 507


>CO982349 
          Length = 795

 Score = 55.5 bits (132), Expect = 2e-08
 Identities = 40/112 (35%), Positives = 57/112 (50%), Gaps = 8/112 (7%)
 Frame = +3

Query: 55  WIKDRVFGGNVSILVNGSPTEEIS-----KQGDHLTPFL---CSRRF**VDVQCGESK*V 106
           WI+  +   +VSILVN SP  E S     +QGD L P L    +     +  +  + K  
Sbjct: 69  WIRGCLHSASVSILVNESPINEFSPQRGLRQGDPLAPLLFNIVAEGLTGLMREAVDRKRF 248

Query: 107 *GF*GC*RRDGDFTSSYADDTLCIGETTVENLYTLKAMLREFEMASSLKVNF 158
             F     ++      YADDT+   E T+EN+  +K +LR FE+AS LK+NF
Sbjct: 249 NSFLVGKNKEPVSILQYADDTIFFEEATMENMKVIKTILRCFELASGLKINF 404


>TC212055 
          Length = 776

 Score = 52.4 bits (124), Expect = 1e-07
 Identities = 22/38 (57%), Positives = 32/38 (83%)
 Frame = +1

Query: 123 YADDTLCIGETTVENLYTLKAMLREFEMASSLKVNFLK 160
           YADDT+ +GE T++N+ T+K+MLR FE+AS LK++F K
Sbjct: 115 YADDTIFLGEATMQNVMTIKSMLRVFELASGLKIHFAK 228


>AW757033 
          Length = 441

 Score = 50.4 bits (119), Expect = 5e-07
 Identities = 22/38 (57%), Positives = 29/38 (75%)
 Frame = -2

Query: 123 YADDTLCIGETTVENLYTLKAMLREFEMASSLKVNFLK 160
           YADDT+  GE T+EN+  +K +LR FE+AS LK+NF K
Sbjct: 269 YADDTIFFGEATMENVRVIKTILRGFELASGLKINFAK 156


>BI972659 
          Length = 453

 Score = 37.4 bits (85), Expect = 0.005
 Identities = 15/31 (48%), Positives = 23/31 (73%)
 Frame = +1

Query: 130 IGETTVENLYTLKAMLREFEMASSLKVNFLK 160
           +GE + +N+  LK+MLR FEM S L++N+ K
Sbjct: 1   VGEASWDNIIVLKSMLRGFEMVSGLRINYAK 93


>BI470652 similar to PIR|T17102|T171 RNA-directed DNA polymerase (EC
          2.7.7.49) (clone AmLi2) - garden snapdragon (fragment),
          partial (22%)
          Length = 111

 Score = 30.0 bits (66), Expect = 0.73
 Identities = 16/36 (44%), Positives = 21/36 (57%), Gaps = 5/36 (13%)
 Frame = +1

Query: 57 KDRVFGGNVSILVNGSPTEEIS-----KQGDHLTPF 87
          K+ +   ++SILVNGSPTEE       +QG    PF
Sbjct: 1  KECLSSASISILVNGSPTEEFKPXRGLRQGGPFGPF 108


>TC233727 similar to UP|Q9FKH8 (Q9FKH8) Similarity to non-LTR retroelement
           reverse transcriptase, partial (7%)
          Length = 956

 Score = 27.3 bits (59), Expect = 4.8
 Identities = 16/43 (37%), Positives = 22/43 (50%), Gaps = 5/43 (11%)
 Frame = -3

Query: 55  WIKDRVFGGNVSILVNGSPTEEIS-----KQGDHLTPFLCSRR 92
           WI+  +    +SI VNG P    S     +QGD L+P L  +R
Sbjct: 663 WIRVILLSAKLSISVNGEPVGFFSCQRGVRQGDPLSPSLYRQR 535


>TC232146 
          Length = 434

 Score = 27.3 bits (59), Expect = 4.8
 Identities = 12/31 (38%), Positives = 17/31 (54%)
 Frame = +3

Query: 49  CGKRVGWIKDRVFGGNVSILVNGSPTEEISK 79
           CG+  GW+ D  F  +VS LV     + +SK
Sbjct: 231 CGRLTGWLLDHFFFYSVSQLVKNKGNKLVSK 323


  Database: GMGI
    Posted date:  Oct 22, 2004  4:58 PM
  Number of letters in database: 37,918,896
  Number of sequences in database:  63,676
  
Lambda     K      H
   0.363    0.169    0.619 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,934,642
Number of Sequences: 63676
Number of extensions: 94836
Number of successful extensions: 898
Number of sequences better than 10.0: 16
Number of HSP's better than 10.0 without gapping: 893
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): 897
length of query: 199
length of database: 12,639,632
effective HSP length: 92
effective length of query: 107
effective length of database: 6,781,440
effective search space: 725614080
effective search space used: 725614080
frameshift window, decay const: 50,  0.1
T: 13
A: 40
X1: 14 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 37 (22.0 bits)
S2: 56 (26.2 bits)