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|81912790|sp|Q80VC6.2|TSAP1_MOUSE RecName: Full=tRNA
selenocysteine 1-associated protein 1; AltName: Full=SECp43; AltName:
Full=tRNA selenocysteine-associated protein 1 . Mus musculus
         (287 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...    74   2e-13
gb|GL291010.1| Polysphondylium pallidum PN500 unplaced genomic s...    55   5e-08
gb|GL290988.1| Polysphondylium pallidum PN500 unplaced genomic s...    45   8e-05
gb|GL290983.1| Polysphondylium pallidum PN500 unplaced genomic s...    44   1e-04

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

 Score = 73.6 bits (179), Expect = 2e-13
 Identities = 55/179 (30%), Positives = 90/179 (50%), Gaps = 1/179 (0%)
 Frame = -2

Query: 4      SLWMGDLEPYMDENFISRAFATMGET-VMSVKIIRNRLTGIPAGYCFVEFADLATAEKCL 62
              SL++GDL P ++E  +S  F+ +G + V S+ + R+ +T    GY +V F +   AE+ L
Sbjct: 980246 SLYVGDLAPDVNEIMLSELFSKVGRSAVASIHVCRDSITFRSLGYAYVNFFNSIDAERAL 980067

Query: 63     HKINGKPLPGATPAKRFKLNYATYGKQPDNSPEYSLFVGDLTPDVDDGMLYEFFVKVYPS 122
                +N   + G      + L   T  K    S   ++FV +L   VD+ ML++ F K + +
Sbjct: 980066 DTLNYSQIMGRPCRIMWSLRDPTKRK----SNVGNIFVKNLDKQVDNAMLFDTFSK-FGN 979902

Query: 123    CRGGKVVLDPTGVSKGYGFVKFTDELEQKRALTECQGAVGLGCKPVRLSVAIPKASRVK 181
                  K+  +  GVSKGYG+V F  +    RA+    G +  G KP+ +   + K  R K
Sbjct: 979901 ILSCKIEYEK-GVSKGYGYVHFETQESSDRAIQGVNGTMLCG-KPITVEQFVSKVERFK 979731


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

 Score = 55.5 bits (132), Expect = 5e-08
 Identities = 41/116 (35%), Positives = 58/116 (50%), Gaps = 8/116 (6%)
 Frame = -1

Query: 63     HKINGKPLPGATPAKRFKLNYATYGKQPDN-------SPEYSLFVGDLTPDVDDGMLYEF 115
              H    KP+      K+ K      G   ++       S ++ LFVGDL  DV D +L + 
Sbjct: 233439 HITKEKPMVTMEEPKKLKYTMTAAGNSWEDPTLSEWDSNDFRLFVGDLGNDVTDELLKQA 233260

Query: 116    FVKVYPSCRGGKVVLDP-TGVSKGYGFVKFTDELEQKRALTECQGAVGLGCKPVRL 170
              F + YPS    KV+ D  T  SKG+GFV F+D  +  RAL E  G   +G +P++L
Sbjct: 233259 FQR-YPSFLKAKVLRDKRTLKSKGFGFVSFSDSKDYVRALREMNGKY-VGNRPIKL 233098


>gb|GL290988.1| Polysphondylium pallidum PN500 unplaced genomic scaffold PPL_scaffold6,
               whole genome shotgun sequence
          Length = 2018088

 Score = 44.7 bits (104), Expect = 8e-05
 Identities = 28/70 (40%), Positives = 41/70 (58%), Gaps = 1/70 (1%)
 Frame = -2

Query: 91      DNSPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDP-TGVSKGYGFVKFTDELE 149
               +NS + +LFV  L   VDD  LY+ F +  P  +  +V+ D  TG +KGYGFVKF ++ +
Sbjct: 1514243 NNSNDTNLFVFHLPGFVDDSYLYKLFSRFGP-LQSVRVITDKDTGENKGYGFVKFQNKDD 1514067

Query: 150     QKRALTECQG 159
                  +L E  G
Sbjct: 1514066 AITSLNEMNG 1514037


>gb|GL290983.1| Polysphondylium pallidum PN500 unplaced genomic scaffold PPL_scaffold1,
              whole genome shotgun sequence
          Length = 1995969

 Score = 44.3 bits (103), Expect = 1e-04
 Identities = 39/165 (23%), Positives = 74/165 (44%), Gaps = 4/165 (2%)
 Frame = +2

Query: 4      SLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLH 63
              ++++ +L+  +D   +   F+  G  ++S K++ +  T    G+ FV +    +AEK + 
Sbjct: 233879 NIFIKNLDKTVDHKALYDTFSAFGN-ILSCKVVTDE-TNTSKGFGFVHYESQESAEKAIA 234052

Query: 64     KINGKPLPG----ATPAKRFKLNYATYGKQPDNSPEYSLFVGDLTPDVDDGMLYEFFVKV 119
              K+NG  +        P K  K   AT   +  N     +F+ +L+ DV +  L +  ++ 
Sbjct: 234053 KVNGMMINNQKVFVGPFKSSKERGATQEVKYTN-----VFIKNLSEDVSEQQLTD-LLQA 234214

Query: 120    YPSCRGGKVVLDPTGVSKGYGFVKFTDELEQKRALTECQGAVGLG 164
              +       ++ D  G SKG+GF  F      K A+    G +  G
Sbjct: 234215 HGKITNLCIMTDEKGKSKGFGFANFEHADAAKGAVENENGKMFSG 234349



 Score = 43.5 bits (101), Expect = 2e-04
 Identities = 28/102 (27%), Positives = 49/102 (48%)
 Frame = +2

Query: 58     AEKCLHKINGKPLPGATPAKRFKLNYATYGKQPDNSPEYSLFVGDLTPDVDDGMLYEFFV 117
              AE+ L  +N  P+ G    K  ++ ++        S   ++F+ +L   VD   LY+ F 
Sbjct: 233774 AERALDTLNNTPIKG----KACRIMWSQRDPSLRKSGIGNIFIKNLDKTVDHKALYDTF- 233938

Query: 118    KVYPSCRGGKVVLDPTGVSKGYGFVKFTDELEQKRALTECQG 159
                + +    KVV D T  SKG+GFV +  +   ++A+ +  G
Sbjct: 233939 SAFGNILSCKVVTDETNTSKGFGFVHYESQESAEKAIAKVNG 234064


  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
   0.317    0.135    0.412 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,445,397
Number of Sequences: 42
Number of extensions: 81620
Number of successful extensions: 349
Number of sequences better than 1.0e-03: 4
Number of HSP's better than  0.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 244
Number of HSP's gapped (non-prelim): 203
length of query: 287
length of database: 10,980,844
effective HSP length: 99
effective length of query: 188
effective length of database: 10,976,686
effective search space: 2063616968
effective search space used: 2063616968
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 (21.7 bits)
S2: 95 (41.2 bits)
