TBLASTN 2.2.17 [Aug-26-2007]


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 composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= SPP00000001_1.0 # Protein # Iodothyronine deiodinase 1 (DI1) #
Homo sapiens # Complete
         (249 letters)

Database: genome.fa 
           23,491 sequences; 86,045,674 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAXJ01000256.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    30   3.0  
gb|AAXJ01000448.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    30   3.5  
gb|AAXJ01000318.1| Perkinsus marinus ATCC 50983 strain ATCC 5098...    29   8.6  

>gb|AAXJ01000256.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296734694,
             whole genome shotgun sequence
          Length = 40653

 Score = 30.4 bits (67), Expect = 3.0,   Method: Composition-based stats.
 Identities = 15/44 (34%), Positives = 25/44 (56%)
 Frame = -3

Query: 85    TTELGGLAPNCPVVRLSGQRCNIWEFMQGNRPLVLNFGSCTUPS 128
             +T  GGL P+CPV+R+  Q    ++     R +V N G+ + P+
Sbjct: 18229 STSCGGLNPSCPVLRIFSQCIVAFDLHGMLRDVVANNGTPSDPT 18098


>gb|AAXJ01000448.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296756580,
             whole genome shotgun sequence
          Length = 29019

 Score = 30.0 bits (66), Expect = 3.5,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 22/43 (51%)
 Frame = -1

Query: 64    TFFSTQYFWFVLKVRWQRLEDTTELGGLAPNCPVVRLSGQRCN 106
             T F+     F+  V  +  E+  EL    P+ P+V LSG RC+
Sbjct: 18135 TMFAANMLNFLTHVHSKGPEEVQELFTAGPSRPIVLLSGSRCS 18007


>gb|AAXJ01000318.1| Perkinsus marinus ATCC 50983 strain ATCC 50983 gcontig_1104296762408,
            whole genome shotgun sequence
          Length = 35466

 Score = 28.9 bits (63), Expect = 8.6,   Method: Composition-based stats.
 Identities = 10/21 (47%), Positives = 15/21 (71%)
 Frame = -1

Query: 66   FSTQYFWFVLKVRWQRLEDTT 86
            ++ Q+FW+ L +RW R  DTT
Sbjct: 6840 WNAQWFWWYLSLRWLRTADTT 6778


  Database: genome.fa
    Posted date:  Jan 16, 2009 12:51 PM
  Number of letters in database: 86,045,674
  Number of sequences in database:  23,491
  
Lambda     K      H
   0.325    0.139    0.450 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 23491
Number of Hits to DB: 26,240,660
Number of extensions: 368642
Number of successful extensions: 1830
Number of sequences better than 10.0: 3
Number of HSP's gapped: 1830
Number of HSP's successfully gapped: 3
Length of query: 249
Length of database: 28,681,891
Length adjustment: 104
Effective length of query: 145
Effective length of database: 26,238,827
Effective search space: 3804629915
Effective search space used: 3804629915
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 40 (20.0 bits)
