TBLASTN 2.2.13 [Nov-27-2005]


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= gi|364502958|ref|NP_001171406.2| type III iodothyronine
deiodinase [Danio rerio]
         (269 letters)

Database: /cursos/BI/genomes/project_2013/Gadus_morhua/genome.fa 
           398,859 sequences; 832,114,588 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

contig121407 dna:contig contig::contig121407:1:1277:1 REF             343   1e-93
GeneScaffold_4497 dna:genescaffold genescaffold:gadMor1:GeneScaf...   299   3e-80
GeneScaffold_1484 dna:genescaffold genescaffold:gadMor1:GeneScaf...    74   3e-12
GeneScaffold_2685 dna:genescaffold genescaffold:gadMor1:GeneScaf...    54   2e-06

>contig121407 dna:contig contig::contig121407:1:1277:1 REF
          Length = 1277

 Score =  343 bits (880), Expect = 1e-93
 Identities = 178/266 (66%), Positives = 206/266 (77%), Gaps = 2/266 (0%)
 Frame = +1

Query: 6   GSAGVQSALKNAAVCVXXXXXXXXXXXXXXXXXXXXIRRKLLLKMQEGAFSSPDDPPLRV 65
           GS  +  ALK+AA+C+                    IR+K+LL+M +G    PDDPP+ V
Sbjct: 40  GSVQMALALKHAALCLMLLPRFLLAAVMLWILDFLCIRKKVLLRMGQGE-GGPDDPPVCV 216

Query: 66  SDSNKMFTLESLRAVWYGQKLDFFKSARLGGAAPNTEVFPLDGDARAAERILDYARGRRP 125
           SDSNKMFTLESLRAVWYGQKLDFFK+A +G +APNTEV  +    R   RILD  RG+RP
Sbjct: 217 SDSNKMFTLESLRAVWYGQKLDFFKAAHVGHSAPNTEVVAVQD--RQTLRILDCMRGKRP 390

Query: 126 LILNFGSCSXPPFMTRLSAFQRVARQYADIADSLLVYIEEAHPSDGWVSSDAPVQIPRHR 185
           LILNFGSCS PPFMTRL+AF+RVA QYADIADSLLVYIEEAHPSDGWVSSDAP QIP+HR
Sbjct: 391 LILNFGSCS*PPFMTRLAAFRRVASQYADIADSLLVYIEEAHPSDGWVSSDAPYQIPKHR 570

Query: 186 CLEDRLRAAQMLHREAAGSAVVVDSMQNSCNAAYGAYFERLYIVKDATVVYQGGRGPEGY 245
           C+EDRLRAAQ++  E  GS VV+D+M NS NAAYGAYFERLYI++D  VVYQGGRGPEGY
Sbjct: 571 CIEDRLRAAQLMLSEVPGSQVVIDTMDNSSNAAYGAYFERLYILRDQRVVYQGGRGPEGY 750

Query: 246 RIAELRDWLERYRSGL--QESAVLHV 269
           RI+ELRDWLE+YR  L   ++AVLHV
Sbjct: 751 RISELRDWLEQYRHDLVSSKTAVLHV 828


>GeneScaffold_4497 dna:genescaffold genescaffold:gadMor1:GeneScaffold_4497:1:397058:1 REF
          Length = 397058

 Score =  299 bits (765), Expect = 3e-80
 Identities = 149/257 (57%), Positives = 182/257 (70%)
 Frame = +1

Query: 5     QGSAGVQSALKNAAVCVXXXXXXXXXXXXXXXXXXXXIRRKLLLKMQEGAFSSPDDPPLR 64
             Q +     A+KNA VC+                    IR+++  +M+        DPPL 
Sbjct: 18583 QPTMNTVKAIKNAIVCLVLLPRFLVAAVLFWLLDFLCIRKRVFFRMRPHEEGDAIDPPLC 18762

Query: 65    VSDSNKMFTLESLRAVWYGQKLDFFKSARLGGAAPNTEVFPLDGDARAAERILDYARGRR 124
             +SDSN++ TLESL+AVW+G KLDF K+ARLG  APNTEV  L    R+  R+LDYA+G R
Sbjct: 18763 ISDSNRLCTLESLKAVWHGHKLDFLKAARLGCGAPNTEVVQLRDQKRS--RVLDYAQGDR 18936

Query: 125   PLILNFGSCSXPPFMTRLSAFQRVARQYADIADSLLVYIEEAHPSDGWVSSDAPVQIPRH 184
             PLILNFGSC+ PPFM RL AF  + +Q+ D+AD L+VYIEEAHPSDGWVSSDAP QIP+H
Sbjct: 18937 PLILNFGSCT*PPFMARLKAFHGLVQQHEDVADYLVVYIEEAHPSDGWVSSDAPYQIPKH 19116

Query: 185   RCLEDRLRAAQMLHREAAGSAVVVDSMQNSCNAAYGAYFERLYIVKDATVVYQGGRGPEG 244
             RCLEDRL AAQ++  E  G AVVVD+M+N+ NAAYGAYF+RLYI+ D  +VYQGGRGPEG
Sbjct: 19117 RCLEDRLSAAQLMRLEVPGCAVVVDNMENATNAAYGAYFDRLYILHDGKIVYQGGRGPEG 19296

Query: 245   YRIAELRDWLERYRSGL 261
             YRI+ELRDWL  YR  L
Sbjct: 19297 YRISELRDWLNHYRQTL 19347


>GeneScaffold_1484 dna:genescaffold genescaffold:gadMor1:GeneScaffold_1484:1:590555:1 REF
          Length = 590555

 Score = 73.6 bits (179), Expect = 3e-12
 Identities = 48/150 (32%), Positives = 76/150 (50%), Gaps = 24/150 (16%)
 Frame = -3

Query: 42     IRRKLLLKMQEGAFSSPDDPPLRVSDSNKMFT-LESLRAVWYGQKLDFFKSARLGGAAPN 100
              + +KL+LKM E   +   +P  R  D    FT L SL+ ++    L   + A +G  AP+
Sbjct: 486198 LAKKLVLKMGEQC-TMTQNPKFRFEDWGPSFTSLTSLKIIFNHLWLSLGQEAFVGWDAPD 486022

Query: 101    TEVFPLDGDARAAERILD-----------------------YARGRRPLILNFGSCSXPP 137
              ++V  L+G+     + L+                        + G RPL+L+FGSC+ PP
Sbjct: 486021 SQVVTLEGNTSTILKHLNG**TDALIH*WVSSPIAFLM*NFISSGNRPLVLSFGSCT*PP 485842

Query: 138    FMTRLSAFQRVARQYADIADSLLVYIEEAH 167
              F+ +L  F+ + + Y D+AD L+VYI EAH
Sbjct: 485841 FLFKLDEFKELVKDYRDVADFLVVYIAEAH 485752



 Score = 51.6 bits (122), Expect = 1e-05
 Identities = 31/69 (44%), Positives = 40/69 (57%)
 Frame = -3

Query: 169    SDGWVSSDAPVQIPRHRCLEDRLRAAQMLHREAAGSAVVVDSMQNSCNAAYGAYFERLYI 228
              SDGW   +  V+I RH+ L DRL AAQ L     G  VVVD M +     YG+  ERLY+
Sbjct: 485370 SDGWAFVNN-VEIKRHQTLGDRLVAAQTLVDLEPGCPVVVDDMSDVTACKYGSLPERLYV 485194

Query: 229    VKDATVVYQ 237
              ++   VVY+
Sbjct: 485193 LQAGKVVYK 485167


>GeneScaffold_2685 dna:genescaffold genescaffold:gadMor1:GeneScaffold_2685:1:119182:1
            REF
          Length = 119182

 Score = 54.3 bits (129), Expect = 2e-06
 Identities = 24/51 (47%), Positives = 34/51 (66%)
 Frame = -3

Query: 206  VVVDSMQNSCNAAYGAYFERLYIVKDATVVYQGGRGPEGYRIAELRDWLER 256
            +V DSM N+ NAAYG   ER+ IV+   + Y GG+GP  Y + ++R WLE+
Sbjct: 4406 LVADSMDNNANAAYGVANERVCIVQRRKIAYLGGKGPFFYNLKDVRQWLEQ 4254


  Database: /cursos/BI/genomes/project_2013/Gadus_morhua/genome.fa
    Posted date:  Oct 24, 2012  8:34 PM
  Number of letters in database: 832,114,588
  Number of sequences in database:  398,859
  
Lambda     K      H
   0.321    0.135    0.402 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 260,892,457
Number of Sequences: 398859
Number of extensions: 3293358
Number of successful extensions: 11375
Number of sequences better than 1.0e-04: 4
Number of HSP's better than  0.0 without gapping: 8732
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): 11373
length of query: 269
length of database: 277,371,529
effective HSP length: 119
effective length of query: 150
effective length of database: 229,907,308
effective search space: 34486096200
effective search space used: 34486096200
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 114 (48.5 bits)
