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: pF1KSDA0108, 233 aa
  1>>>pF1KSDA0108 233 - 233 aa - 233 aa
Library: human.CCDS.faa
  18511270 residues in 32554 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.6524+/-0.000673; mu= 13.5350+/- 0.041
 mean_var=75.9138+/-14.991, 0's: 0 Z-trim(111.3): 11  B-trim: 0 in 0/53
 Lambda= 0.147202
 statistics sampled from 12286 (12291) to 12286 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.73), E-opt: 0.2 (0.378), width:  16
 Scan time:  2.140

The best scores are:                                      opt bits E(32554)
CCDS1696.1 LAPTM4A gene_id:9741|Hs108|chr2         ( 233) 1595 347.3 5.1e-96
CCDS6275.1 LAPTM4B gene_id:55353|Hs108|chr8        ( 317)  720 161.5 5.7e-40


>>CCDS1696.1 LAPTM4A gene_id:9741|Hs108|chr2              (233 aa)
 initn: 1595 init1: 1595 opt: 1595  Z-score: 1837.3  bits: 347.3 E(32554): 5.1e-96
Smith-Waterman score: 1595; 100.0% identity (100.0% similar) in 233 aa overlap (1-233:1-233)

               10        20        30        40        50        60
pF1KSD MVSMSFKRNRSDRFYSTRCCGCCHVRTGTIILGTWYMVVNLLMAILLTVEVTHPNSMPAV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS16 MVSMSFKRNRSDRFYSTRCCGCCHVRTGTIILGTWYMVVNLLMAILLTVEVTHPNSMPAV
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KSD NIQYEVIGNYYSSERMADNACVLFAVSVLMFIISSMLVYGAISYQVGWLIPFFCYRLFDF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS16 NIQYEVIGNYYSSERMADNACVLFAVSVLMFIISSMLVYGAISYQVGWLIPFFCYRLFDF
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KSD VLSCLVAISSLTYLPRIKEYLDQLPDFPYKDDLLALDSSCLLFIVLVFFALFIIFKAYLI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS16 VLSCLVAISSLTYLPRIKEYLDQLPDFPYKDDLLALDSSCLLFIVLVFFALFIIFKAYLI
              130       140       150       160       170       180

              190       200       210       220       230   
pF1KSD NCVWNCYKYINNRNVPEIAVYPAFEAPPQYVLPTYEMAVKMPEKEPPPPYLPA
       :::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS16 NCVWNCYKYINNRNVPEIAVYPAFEAPPQYVLPTYEMAVKMPEKEPPPPYLPA
              190       200       210       220       230   

>>CCDS6275.1 LAPTM4B gene_id:55353|Hs108|chr8             (317 aa)
 initn: 738 init1: 300 opt: 720  Z-score: 831.1  bits: 161.5 E(32554): 5.7e-40
Smith-Waterman score: 720; 45.5% identity (75.9% similar) in 224 aa overlap (13-233:100-317)

                                 10        20        30        40  
pF1KSD                   MVSMSFKRNRSDRFYSTRCCGCCHVRTGTIILGTWYMVVNLL
                                     ::::. :: :::::::::.::.::...: .
CCDS62 LQARRSTLLKTCARARATAPGAMKMVAPWTRFYSNSCCLCCHVRTGTILLGVWYLIINAV
      70        80        90       100       110       120         

             50        60        70         80        90       100 
pF1KSD MAILLTVEVTHPNSMPAVNIQYEVIGNYYSSERMAD-NACVLFAVSVLMFIISSMLVYGA
       . ..:   .. :...   :..   .:. .  : : : : :. .:.:.::..: .: .:::
CCDS62 VLLILLSALADPDQY---NFSSSELGGDF--EFMDDANMCIAIAISLLMILICAMATYGA
     130       140          150         160       170       180    

             110       120       130       140        150       160
pF1KSD ISYQVGWLIPFFCYRLFDFVLSCLVAISSLTYLPRIKEYLDQLP-DFPYKDDLLALDSSC
        . ...:.::::::..:::.:. ::::. : :   :.::. ::: .:::.::..... .:
CCDS62 YKQRAAWIIPFFCYQIFDFALNMLVAITVLIYPNSIQEYIRQLPPNFPYRDDVMSVNPTC
          190       200       210       220       230       240    

              170       180       190       200       210          
pF1KSD LLFIVLVFFALFIIFKAYLINCVWNCYKYINNRNVPEIAVYPAFEAPPQYVLPTYEMA-V
       :..:.:.:..... ::.:::.::::::.:::.::  .. :: .       .:: :. : :
CCDS62 LVLIILLFISIILTFKGYLISCVWNCYRYINGRNSSDVLVY-VTSNDTTVLLPPYDDATV
          250       260       270       280        290       300   

     220       230   
pF1KSD KMPEKEPPPPYLPA
       .   :::::::. :
CCDS62 NGAAKEPPPPYVSA
           310       




233 residues in 1 query   sequences
18511270 residues in 32554 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Thu Nov  3 00:01:19 2016 done: Thu Nov  3 00:01:20 2016
 Total Scan time:  2.140 Total Display time: -0.010

Function used was FASTA [36.3.4 Apr, 2011]