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: pF1KE1261, 604 aa
  1>>>pF1KE1261 604 - 604 aa - 604 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.1711+/-0.000349; mu= 20.5408+/- 0.022
 mean_var=84.2756+/-17.323, 0's: 0 Z-trim(114.7): 4  B-trim: 0 in 0/57
 Lambda= 0.139709
 statistics sampled from 24630 (24632) to 24630 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.663), E-opt: 0.2 (0.289), width:  16
 Scan time: 10.160

The best scores are:                                      opt bits E(85289)
NP_001007254 (OMIM: 131170) endogenous retrovirus  ( 604) 4214 859.6       0


>>NP_001007254 (OMIM: 131170) endogenous retrovirus grou  (604 aa)
 initn: 4214 init1: 4214 opt: 4214  Z-score: 4591.6  bits: 859.6 E(85289):    0
Smith-Waterman score: 4214; 99.3% identity (99.7% similar) in 604 aa overlap (1-604:1-604)

               10        20        30        40        50        60
pF1KE1 MLGMNMLLITLFLLLPLSMLKGEPWEGCLHCTHTTWSGNIMTKTLLYHTYYECAGTCLGT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MLGMNMLLITLFLLLPLSMLKGEPWEGCLHCTHTTWSGNIMTKTLLYHTYYECAGTCLGT
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE1 CTHNQTTYSVCDPGRGQPYVCYDPKSSPGIWFEIHVGSKEGDLLNQTKVFPSGKDVVSLY
       ::::::::::::::::::::::::::::: ::::::::::::::::::::::::::::::
NP_001 CTHNQTTYSVCDPGRGQPYVCYDPKSSPGTWFEIHVGSKEGDLLNQTKVFPSGKDVVSLY
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE1 FDVCQIVSMGSLFPVIFSSMEYYSSCHKNRYAHPACSTDSPVTTCWDCTTWSTNQQSLGP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 FDVCQIVSMGSLFPVIFSSMEYYSSCHKNRYAHPACSTDSPVTTCWDCTTWSTNQQSLGP
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KE1 IMLTKIPLEPDYKTSTCNSVNLTILEPDQPIWTTGLKAPLGARVSGEEIGPGAYVYLYII
       ::::::::::: ::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 IMLTKIPLEPDCKTSTCNSVNLTILEPDQPIWTTGLKAPLGARVSGEEIGPGAYVYLYII
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KE1 KKTRTRSTQQFRVFESFYEHVNQKLPEPPPLASNLFAQLAENIASSLHVASCYVCGGMNM
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 KKTRTRSTQQFRVFESFYEHVNQKLPEPPPLASNLFAQLAENIASSLHVASCYVCGGMNM
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KE1 GDQWPWEARELMPQDNFTLTASSLEPAPSSQSIWFLKTSIIGKFCIARWGKAFTDPVGEL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 GDQWPWEARELMPQDNFTLTASSLEPAPSSQSIWFLKTSIIGKFCIARWGKAFTDPVGEL
              310       320       330       340       350       360

              370       380       390       400       410       420
pF1KE1 TCLGQQYYNETLGKTLWRGKSNNSESPHPSPFSRFPSLNHSWYQLEAPNTWQAPSGLYWI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 TCLGQQYYNETLGKTLWRGKSNNSESPHPSPFSRFPSLNHSWYQLEAPNTWQAPSGLYWI
              370       380       390       400       410       420

              430       440       450       460       470       480
pF1KE1 CGPQAYRQLPAKWSGACVLGTIRPSFFLMPLKQGEALGYPIYDETKRKSKRGITIGDWKD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 CGPQAYRQLPAKWSGACVLGTIRPSFFLMPLKQGEALGYPIYDETKRKSKRGITIGDWKD
              430       440       450       460       470       480

              490       500       510       520       530       540
pF1KE1 SEWPPERIIQYYGPATWAEDGMWGYRTPVYMLNRIIRLQAVLEIITNETAGALNLLAQQA
       .:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 NEWPPERIIQYYGPATWAEDGMWGYRTPVYMLNRIIRLQAVLEIITNETAGALNLLAQQA
              490       500       510       520       530       540

              550       560       570       580       590       600
pF1KE1 TKMRNVIYQNRLALDYLLAQEEGVCGKFSLTNCCLELDDEGKVIKEITAKIQKLAHIPVQ
       ::::::::::::::::::::::::::::.:::::::::::::::::::::::::::::::
NP_001 TKMRNVIYQNRLALDYLLAQEEGVCGKFNLTNCCLELDDEGKVIKEITAKIQKLAHIPVQ
              550       560       570       580       590       600

           
pF1KE1 TWKG
       ::::
NP_001 TWKG
           




604 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sun Nov  6 10:27:09 2016 done: Sun Nov  6 10:27:10 2016
 Total Scan time: 10.160 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]