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|198421765|ref|XP_002125303.1| PREDICTED: similar to tRNA
selenocysteine-associated protein 1 (SECp43) [Ciona intestinalis]
         (324 letters)

Database: P.pallidum/genome.fa 
           42 sequences; 32,942,533 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|GL290991.1| Polysphondylium pallidum PN500 unplaced genomic s...    72   4e-13
gb|GL291010.1| Polysphondylium pallidum PN500 unplaced genomic s...    62   6e-10

>gb|GL290991.1| Polysphondylium pallidum PN500 unplaced genomic scaffold PPL_scaffold9,
              whole genome shotgun sequence
          Length = 2264991

 Score = 72.4 bits (176), Expect = 4e-13
 Identities = 56/168 (33%), Positives = 88/168 (52%), Gaps = 2/168 (1%)
 Frame = -2

Query: 4      SLWMGDLEPYMDETFVNKAFLQV--SQPVSVKVIRRKDNGLPAGYCFIEFPSEAEAERVL 61
              SL++GDL P ++E  +++ F +V  S   S+ V R        GY ++ F +  +AER L
Sbjct: 980246 SLYVGDLAPDVNEIMLSELFSKVGRSAVASIHVCRDSITFRSLGYAYVNFFNSIDAERAL 980067

Query: 62     KLVNGTTINGSNPPKRFRLNRSQAGKMWDIGPSFSIFVGDLDATVTDDKLEDFFLKRYRS 121
                +N + I G  P +     R    +  ++G   +IFV +LD  V +  L D F K + +
Sbjct: 980066 DTLNYSQIMG-RPCRIMWSLRDPTKRKSNVG---NIFVKNLDKQVDNAMLFDTFSK-FGN 979902

Query: 122    VKGAKIMYEEGGISRGYGFVRFSDEAEQKRALQEMQGIRGLGAKPIRV 169
              +   KI YE+G +S+GYG+V F  +    RA+Q + G   L  KPI V
Sbjct: 979901 ILSCKIEYEKG-VSKGYGYVHFETQESSDRAIQGVNGTM-LCGKPITV 979764



 Score = 49.3 bits (116), Expect = 4e-06
 Identities = 35/145 (24%), Positives = 72/145 (49%)
 Frame = -2

Query: 33     KVIRRKDNGLPAGYCFIEFPSEAEAERVLKLVNGTTINGSNPPKRFRLNRSQAGKMWDIG 92
              ++ +++ NG P     +   S A           TT++ +  P     N +         
Sbjct: 979457 QIKQQQANGNPNNNNNVVNNSTAPTVAATTTTTTTTVDSNGNPTNSSNNNNSVAPT---- 979290

Query: 93     PSFSIFVGDLDATVTDDKLEDFFLKRYRSVKGAKIMYEEGGISRGYGFVRFSDEAEQKRA 152
               + ++F+ ++D ++  + + + F K + ++ G KI+ +E G +RG+GF+ +S + E   A
Sbjct: 979289 -NLTLFIHNIDESIDKEVIREEFAK-HGTILGIKIV-QENGKNRGFGFLSYSTQEEANIA 979119

Query: 153    LQEMQGIRGLGAKPIRVSVATPKGK 177
              +++M G   LG+KP+ VS +  K K
Sbjct: 979118 IEKMNGFI-LGSKPLSVSFSNRKYK 979047


>gb|GL291010.1| Polysphondylium pallidum PN500 unplaced genomic scaffold PPL_contig13,
              whole genome shotgun sequence
          Length = 836226

 Score = 62.0 bits (149), Expect = 6e-10
 Identities = 39/111 (35%), Positives = 64/111 (57%), Gaps = 8/111 (7%)
 Frame = -1

Query: 75     PKRFRLNRSQAGKMWDI-------GPSFSIFVGDLDATVTDDKLEDFFLKRYRSVKGAKI 127
              PK+ +   + AG  W+           F +FVGDL   VTD+ L+  F +RY S   AK+
Sbjct: 233400 PKKLKYTMTAAGNSWEDPTLSEWDSNDFRLFVGDLGNDVTDELLKQAF-QRYPSFLKAKV 233224

Query: 128    MYEEGGI-SRGYGFVRFSDEAEQKRALQEMQGIRGLGAKPIRVSVATPKGK 177
              + ++  + S+G+GFV FSD  +  RAL+EM G + +G +PI++  ++ K +
Sbjct: 233223 LRDKRTLKSKGFGFVSFSDSKDYVRALREMNG-KYVGNRPIKLKKSSWKDR 233074



 Score = 48.5 bits (114), Expect = 7e-06
 Identities = 34/106 (32%), Positives = 44/106 (41%), Gaps = 23/106 (21%)
 Frame = +1

Query: 198    YDDATAYAQQLLQMQQYTDQYKYY----------------------QQYCDYYNYQQQYS 235
              YD+  A  QQ  Q QQY +QY+ Y                      Q Y DYYNY    +
Sbjct: 264760 YDEKDAEYQQQEQQQQYQEQYQNYAYQQHIQPQQYNTIEEYNAACQQYYNDYYNYYYYGA 264939

Query: 236    YYQQQAQNSQAYARANVEQYASTEHYQASRLHQQEN-NNNKLEDPN 280
              Y QQQ Q+     +   +Q    E  Q  +  QQ N +N KL+  N
Sbjct: 264940 YQQQQQQHVDYGQQQQQQQQVEYEQQQQQQQQQQPNVDNRKLQQVN 265077


  Database: P.pallidum/genome.fa
    Posted date:  Feb 9, 2011  9:02 AM
  Number of letters in database: 32,942,533
  Number of sequences in database:  42
  
Lambda     K      H
   0.315    0.130    0.377 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,945,032
Number of Sequences: 42
Number of extensions: 173593
Number of successful extensions: 8818
Number of sequences better than 1.0e-05: 2
Number of HSP's better than  0.0 without gapping: 116
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 579
Number of HSP's gapped (non-prelim): 7534
length of query: 324
length of database: 10,980,844
effective HSP length: 101
effective length of query: 223
effective length of database: 10,976,602
effective search space: 2447782246
effective search space used: 2447782246
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 113 (48.1 bits)