>XRN1_MOUSE (P97789) 5'-3' exoribonuclease 1 (EC 3.1.11.-) (mXRN1)|
            (Strand-exchange protein 1 homolog) (Protein Dhm2)
          Length = 1719

 Score = 32.3 bits (72), Expect = 0.48
 Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 6/77 (7%)
 Frame = +3

Query: 105  YHNMQQVPAQMVQLQTSSPQAQSAPHVALFYPPYGSQ------QPACGNTETLSRGMVXQ 266
            + N +   +Q   LQT+ P +  A  +     P  S       QP   + ET S+G V  
Sbjct: 1633 FENKEAQSSQATPLQTNKPGSSEATKMTPQESPPASSSSSQAAQPVSSHVETASQGHVGS 1692

Query: 267  PAYSTISSSQRKHHEAA 317
               S  SSS+RK  + A
Sbjct: 1693 QPRSAPSSSKRKSRKLA 1709

>VID21_NEUCR (Q7SBU6) Chromatin modification-related protein vid-21|
          Length = 2189

 Score = 30.0 bits (66), Expect = 2.4
 Identities = 22/76 (28%), Positives = 24/76 (31%), Gaps = 4/76 (5%)
 Frame = +3

Query: 6    IQAQHHWQHQTVQDVHSXXXXXXXXXXXXXXXXYHN----MQQVPAQMVQLQTSSPQAQS 173
            +Q Q H QHQ  Q                            QQ P Q  QLQ   PQ Q 
Sbjct: 1324 LQQQQHQQHQHQQHPQQPQQQGQVQQQVVSQQQQQQHQPQQQQQPQQQQQLQQQQPQQQQ 1383

Query: 174  APHVALFYPPYGSQQP 221
              H  +  P    QQP
Sbjct: 1384 PQHQQVQTPQPAQQQP 1399

>RPB1_CAEEL (P16356) DNA-directed RNA polymerase II largest subunit (EC 2.7.7.6)|
          Length = 1852

 Score = 30.0 bits (66), Expect = 2.4
 Identities = 24/92 (26%), Positives = 37/92 (40%), Gaps = 1/92 (1%)
 Frame = +3

Query: 153  SSPQ-AQSAPHVALFYPPYGSQQPACGNTETLSRGMVXQPAYSTISSSQRKHHEAAPVYV 329
            SSPQ + ++PH +   P Y    PA G +          P+YS  S S   +   +P Y 
Sbjct: 1578 SSPQFSMTSPHYSPTSPSYSPTSPAAGQSPVSPSYSPTSPSYSPTSPS---YSPTSPSYS 1634

Query: 330  QSSAIAVPMAEXXXXXXXXXXFXSPGNGSFAP 425
             +S    P +             SP + S++P
Sbjct: 1635 PTSPSYSPTSPSYSPTSPS---YSPSSPSYSP 1663

>TLE3_HUMAN (Q04726) Transducin-like enhancer protein 3 (ESG3)|
          Length = 772

 Score = 30.0 bits (66), Expect = 2.4
 Identities = 22/75 (29%), Positives = 34/75 (45%)
 Frame = +3

Query: 117 QQVPAQMVQLQTSSPQAQSAPHVALFYPPYGSQQPACGNTETLSRGMVXQPAYSTISSSQ 296
           QQ+ AQ +   T  P  Q  PH +   PP G       ++  L+ G +   A+ T+   +
Sbjct: 126 QQLQAQHLSHATHGPPVQLPPHPSGLQPP-GIPPVTGSSSGLLALGALGSQAHLTV-KDE 183

Query: 297 RKHHEAAPVYVQSSA 341
           + HHE      +SSA
Sbjct: 184 KNHHELDHRERESSA 198

>CI010_HUMAN (Q9NZB2) Protein C9orf10|
          Length = 1069

 Score = 28.9 bits (63), Expect = 5.3
 Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 3/80 (3%)
 Frame = +3

Query: 114 MQQVPAQMVQLQTSSPQAQS---APHVALFYPPYGSQQPACGNTETLSRGMVXQPAYSTI 284
           M  +P   +Q +  +PQ  S   AP    +  PY   +PA    +T  + +  Q +YS I
Sbjct: 364 MLNIPQTSLQAKPVAPQVPSPGGAPGQGPY--PYSLSEPAPLTLDTSGKNLTEQNSYSNI 421

Query: 285 SSSQRKHHEAAPVYVQSSAI 344
              + KH    P+Y +SS I
Sbjct: 422 -PHEGKH---TPLYERSSPI 437

>CLN3_MACFA (Q60HH0) Protein CLN3 (Battenin)|
          Length = 438

 Score = 28.1 bits (61), Expect = 9.0
 Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 5/64 (7%)
 Frame = +1

Query: 55  RRQGNNNH-----SPRWHNSSSTTTCNKFQLRWFNCKHLLRRPKVRLMSPCSILLTDPNS 219
           R  GN +H     +P  HNSSS   CN           +L    ++L++P  + L  P S
Sbjct: 67  RTSGNQSHVDPGPAPIPHNSSSRFDCNSVSTAAVLLADILPTLVIKLLAPLGLHLL-PYS 125

Query: 220 PHVV 231
           P V+
Sbjct: 126 PRVL 129

>CLN3_HUMAN (Q13286) Protein CLN3 (Battenin) (Batten disease protein)|
          Length = 438

 Score = 28.1 bits (61), Expect = 9.0
 Identities = 20/64 (31%), Positives = 29/64 (45%), Gaps = 5/64 (7%)
 Frame = +1

Query: 55  RRQGNNNH-----SPRWHNSSSTTTCNKFQLRWFNCKHLLRRPKVRLMSPCSILLTDPNS 219
           R  GN +H     +P  HNSSS   CN           +L    ++L++P  + L  P S
Sbjct: 67  RTSGNQSHVDPGPTPIPHNSSSRFDCNSVSTAAVLLADILPTLVIKLLAPLGLHLL-PYS 125

Query: 220 PHVV 231
           P V+
Sbjct: 126 PRVL 129

>BAB2_DROME (Q9W0K4) Protein bric-a-brac 2|
          Length = 1067

 Score = 28.1 bits (61), Expect = 9.0
 Identities = 18/57 (31%), Positives = 26/57 (45%)
 Frame = +3

Query: 171 SAPHVALFYPPYGSQQPACGNTETLSRGMVXQPAYSTISSSQRKHHEAAPVYVQSSA 341
           +A + AL  P  GS  P    TETL R ++ Q         Q+ HH+  P + Q  +
Sbjct: 771 AAQNAALAPPDAGS--PLSSMTETLRRQILSQQQQHQQHHQQQAHHQQQPSHHQQQS 825

>DHH1_CANAL (Q5AAW3) ATP-dependent RNA helicase DHH1 (EC 3.6.1.-)|
          Length = 549

 Score = 28.1 bits (61), Expect = 9.0
 Identities = 16/33 (48%), Positives = 18/33 (54%)
 Frame = +3

Query: 117 QQVPAQMVQLQTSSPQAQSAPHVALFYPPYGSQ 215
           QQ P Q  Q Q  +PQ Q APH    +PPY  Q
Sbjct: 467 QQQPQQ--QQQQPNPQHQFAPHPNGQFPPYPQQ 497

>ZN561_HUMAN (Q8N587) Zinc finger protein 561|
          Length = 486

 Score = 28.1 bits (61), Expect = 9.0
 Identities = 11/33 (33%), Positives = 17/33 (51%)
 Frame = -3

Query: 234 CYHMRAVGIRKEDRTGRHEAHFGPAEKMFAVEP 136
           CY    + + KE  TG+  + F P  K+F + P
Sbjct: 150 CYGKDTLSVHKEASTGQELSKFNPCGKVFTLTP 182


  Database: uniprot_sprot.fasta
    Posted date:  May 25, 2006  5:36 PM
  Number of letters in database: 80,573,946
  Number of sequences in database:  219,361
  
Lambda     K      H
   0.318    0.135    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 53,785,564
Number of Sequences: 219361
Number of extensions: 893244
Number of successful extensions: 2518
Number of sequences better than 10.0: 10
Number of HSP's better than 10.0 without gapping: 2445
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): 2516
length of database: 80,573,946
effective HSP length: 101
effective length of database: 58,418,485
effective search space used: 2336739400
frameshift window, decay const: 50,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)