FASTA searches a protein or DNA sequence data bank 36.3.4 Apr, 2011
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: pF1KA0409, 456 aa
  1>>>pF1KA0409 456 - 456 aa - 456 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 8.1320+/-0.000302; mu= 5.7539+/- 0.019
 mean_var=168.0548+/-33.247, 0's: 0 Z-trim(122.6): 53  B-trim: 282 in 1/56
 Lambda= 0.098935
 statistics sampled from 40880 (40938) to 40880 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.793), E-opt: 0.2 (0.48), width:  16
 Scan time:  8.500

The best scores are:                                      opt bits E(85289)
NP_056139 (OMIM: 615818) ribosomal RNA-processing  ( 456) 3103 454.5 2.6e-127
XP_011518257 (OMIM: 615818) PREDICTED: ribosomal R ( 428) 2830 415.5 1.3e-115
XP_016872912 (OMIM: 615818) PREDICTED: ribosomal R ( 215) 1450 218.4 1.5e-56


>>NP_056139 (OMIM: 615818) ribosomal RNA-processing prot  (456 aa)
 initn: 3103 init1: 3103 opt: 3103  Z-score: 2406.5  bits: 454.5 E(85289): 2.6e-127
Smith-Waterman score: 3103; 100.0% identity (100.0% similar) in 456 aa overlap (1-456:1-456)

               10        20        30        40        50        60
pF1KA0 MFEEPEWAEAAPVAAGLGPVISRPPPAASSQNKGSKRRQLLATLRALEAASLSQHPPSLC
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_056 MFEEPEWAEAAPVAAGLGPVISRPPPAASSQNKGSKRRQLLATLRALEAASLSQHPPSLC
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KA0 ISDSEEEEEERKKKCPKKASFASASAEVGKKGKKKCQKQGPPCSDSEEEVERKKKCHKQA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_056 ISDSEEEEEERKKKCPKKASFASASAEVGKKGKKKCQKQGPPCSDSEEEVERKKKCHKQA
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KA0 LVGSDSAEDEKRKRKCQKHAPINSAQHLDNVDQTGPKAWKGSTTNDPPKQSPGSTSPKPP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_056 LVGSDSAEDEKRKRKCQKHAPINSAQHLDNVDQTGPKAWKGSTTNDPPKQSPGSTSPKPP
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KA0 HTLSRKQWRNRQKNKRRCKNKFQPPQVPDQAPAEAPTEKTEVSPVPRTDSHEARAGALRA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_056 HTLSRKQWRNRQKNKRRCKNKFQPPQVPDQAPAEAPTEKTEVSPVPRTDSHEARAGALRA
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KA0 RMAQRLDGARFRYLNEQLYSGPSSAAQRLFQEDPEAFLLYHRGFQSQVKKWPLQPVDRIA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_056 RMAQRLDGARFRYLNEQLYSGPSSAAQRLFQEDPEAFLLYHRGFQSQVKKWPLQPVDRIA
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KA0 RDLRQRPASLVVADFGCGDCRLASSIRNPVHCFDLASLDPRVTVCDMAQVPLEDESVDVA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_056 RDLRQRPASLVVADFGCGDCRLASSIRNPVHCFDLASLDPRVTVCDMAQVPLEDESVDVA
              310       320       330       340       350       360

              370       380       390       400       410       420
pF1KA0 VFCLSLMGTNIRDFLEEANRVLKPGGLLKVAEVSSRFEDVRTFLRAVTKLGFKIVSKDLT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_056 VFCLSLMGTNIRDFLEEANRVLKPGGLLKVAEVSSRFEDVRTFLRAVTKLGFKIVSKDLT
              370       380       390       400       410       420

              430       440       450      
pF1KA0 NSHFFLFDFQKTGPPLVGPKAQLSGLQLQPCLYKRR
       ::::::::::::::::::::::::::::::::::::
NP_056 NSHFFLFDFQKTGPPLVGPKAQLSGLQLQPCLYKRR
              430       440       450      

>>XP_011518257 (OMIM: 615818) PREDICTED: ribosomal RNA-p  (428 aa)
 initn: 2828 init1: 2828 opt: 2830  Z-score: 2196.3  bits: 415.5 E(85289): 1.3e-115
Smith-Waterman score: 2830; 98.1% identity (98.6% similar) in 428 aa overlap (1-423:1-428)

               10        20        30        40        50        60
pF1KA0 MFEEPEWAEAAPVAAGLGPVISRPPPAASSQNKGSKRRQLLATLRALEAASLSQHPPSLC
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 MFEEPEWAEAAPVAAGLGPVISRPPPAASSQNKGSKRRQLLATLRALEAASLSQHPPSLC
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KA0 ISDSEEEEEERKKKCPKKASFASASAEVGKKGKKKCQKQGPPCSDSEEEVERKKKCHKQA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 ISDSEEEEEERKKKCPKKASFASASAEVGKKGKKKCQKQGPPCSDSEEEVERKKKCHKQA
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KA0 LVGSDSAEDEKRKRKCQKHAPINSAQHLDNVDQTGPKAWKGSTTNDPPKQSPGSTSPKPP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LVGSDSAEDEKRKRKCQKHAPINSAQHLDNVDQTGPKAWKGSTTNDPPKQSPGSTSPKPP
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KA0 HTLSRKQWRNRQKNKRRCKNKFQPPQVPDQAPAEAPTEKTEVSPVPRTDSHEARAGALRA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 HTLSRKQWRNRQKNKRRCKNKFQPPQVPDQAPAEAPTEKTEVSPVPRTDSHEARAGALRA
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KA0 RMAQRLDGARFRYLNEQLYSGPSSAAQRLFQEDPEAFLLYHRGFQSQVKKWPLQPVDRIA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 RMAQRLDGARFRYLNEQLYSGPSSAAQRLFQEDPEAFLLYHRGFQSQVKKWPLQPVDRIA
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KA0 RDLRQRPASLVVADFGCGDCRLASSIRNPVHCFDLASLDPRVTVCDMAQVPLEDESVDVA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 RDLRQRPASLVVADFGCGDCRLASSIRNPVHCFDLASLDPRVTVCDMAQVPLEDESVDVA
              310       320       330       340       350       360

              370       380       390       400       410          
pF1KA0 VFCLSLMGTNIRDFLEEANRVLKPGGLLKVAEVSSRFEDVRTFLRAVTKLGFKIVSK---
       :::::::::::::::::::::::::::::::::::::::::::::::::::::::::   
XP_011 VFCLSLMGTNIRDFLEEANRVLKPGGLLKVAEVSSRFEDVRTFLRAVTKLGFKIVSKLSS
              370       380       390       400       410       420

         420       430       440       450      
pF1KA0 --DLTNSHFFLFDFQKTGPPLVGPKAQLSGLQLQPCLYKRR
         .: .::                                 
XP_011 FENLQHSH                                 
                                                

>>XP_016872912 (OMIM: 615818) PREDICTED: ribosomal RNA-p  (215 aa)
 initn: 1450 init1: 1450 opt: 1450  Z-score: 1136.1  bits: 218.4 E(85289): 1.5e-56
Smith-Waterman score: 1450; 100.0% identity (100.0% similar) in 215 aa overlap (242-456:1-215)

             220       230       240       250       260       270 
pF1KA0 PAEAPTEKTEVSPVPRTDSHEARAGALRARMAQRLDGARFRYLNEQLYSGPSSAAQRLFQ
                                     ::::::::::::::::::::::::::::::
XP_016                               MAQRLDGARFRYLNEQLYSGPSSAAQRLFQ
                                             10        20        30

             280       290       300       310       320       330 
pF1KA0 EDPEAFLLYHRGFQSQVKKWPLQPVDRIARDLRQRPASLVVADFGCGDCRLASSIRNPVH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 EDPEAFLLYHRGFQSQVKKWPLQPVDRIARDLRQRPASLVVADFGCGDCRLASSIRNPVH
               40        50        60        70        80        90

             340       350       360       370       380       390 
pF1KA0 CFDLASLDPRVTVCDMAQVPLEDESVDVAVFCLSLMGTNIRDFLEEANRVLKPGGLLKVA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 CFDLASLDPRVTVCDMAQVPLEDESVDVAVFCLSLMGTNIRDFLEEANRVLKPGGLLKVA
              100       110       120       130       140       150

             400       410       420       430       440       450 
pF1KA0 EVSSRFEDVRTFLRAVTKLGFKIVSKDLTNSHFFLFDFQKTGPPLVGPKAQLSGLQLQPC
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 EVSSRFEDVRTFLRAVTKLGFKIVSKDLTNSHFFLFDFQKTGPPLVGPKAQLSGLQLQPC
              160       170       180       190       200       210

            
pF1KA0 LYKRR
       :::::
XP_016 LYKRR
            




456 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Wed Nov  2 18:49:33 2016 done: Wed Nov  2 18:49:34 2016
 Total Scan time:  8.500 Total Display time:  0.000

Function used was FASTA [36.3.4 Apr, 2011]