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: pF1KB8934, 284 aa
  1>>>pF1KB8934 284 - 284 aa - 284 aa
Library: human.CCDS.faa
  18511270 residues in 32554 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 7.4940+/-0.000823; mu= 8.3448+/- 0.050
 mean_var=225.5429+/-47.007, 0's: 0 Z-trim(115.0): 114  B-trim: 810 in 1/52
 Lambda= 0.085400
 statistics sampled from 15409 (15533) to 15409 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.802), E-opt: 0.2 (0.477), width:  16
 Scan time:  2.760

The best scores are:                                      opt bits E(32554)
CCDS11536.1 HOXB13 gene_id:10481|Hs108|chr17       ( 284) 1992 257.4 8.7e-69
CCDS8865.1 HOXC13 gene_id:3229|Hs108|chr12         ( 330)  848 116.5 2.6e-26
CCDS5412.1 HOXA13 gene_id:3209|Hs108|chr7          ( 388)  714 100.1 2.7e-21
CCDS2264.2 HOXD13 gene_id:3239|Hs108|chr2          ( 343)  669 94.5 1.1e-19


>>CCDS11536.1 HOXB13 gene_id:10481|Hs108|chr17            (284 aa)
 initn: 1992 init1: 1992 opt: 1992  Z-score: 1348.4  bits: 257.4 E(32554): 8.7e-69
Smith-Waterman score: 1992; 100.0% identity (100.0% similar) in 284 aa overlap (1-284:1-284)

               10        20        30        40        50        60
pF1KB8 MEPGNYATLDGAKDIEGLLGAGGGRNLVAHSPLTSHPAAPTLMPAVNYAPLDLPGSAEPP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS11 MEPGNYATLDGAKDIEGLLGAGGGRNLVAHSPLTSHPAAPTLMPAVNYAPLDLPGSAEPP
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 KQCHPCPGVPQGTSPAPVPYGYFGGGYYSCRVSRSSLKPCAQAATLAAYPAETPTAGEEY
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS11 KQCHPCPGVPQGTSPAPVPYGYFGGGYYSCRVSRSSLKPCAQAATLAAYPAETPTAGEEY
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB8 PSRPTEFAFYPGYPGTYQPMASYLDVSVVQTLGAPGEPRHDSLLPVDSYQSWALAGGWNS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS11 PSRPTEFAFYPGYPGTYQPMASYLDVSVVQTLGAPGEPRHDSLLPVDSYQSWALAGGWNS
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KB8 QMCCQGEQNPPGPFWKAAFADSSGQHPPDACAFRRGRKKRIPYSKGQLRELEREYAANKF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS11 QMCCQGEQNPPGPFWKAAFADSSGQHPPDACAFRRGRKKRIPYSKGQLRELEREYAANKF
              190       200       210       220       230       240

              250       260       270       280    
pF1KB8 ITKDKRRKISAATSLSERQITIWFQNRRVKEKKVLAKVKNSATP
       ::::::::::::::::::::::::::::::::::::::::::::
CCDS11 ITKDKRRKISAATSLSERQITIWFQNRRVKEKKVLAKVKNSATP
              250       260       270       280    

>>CCDS8865.1 HOXC13 gene_id:3229|Hs108|chr12              (330 aa)
 initn: 787 init1: 351 opt: 848  Z-score: 585.9  bits: 116.5 E(32554): 2.6e-26
Smith-Waterman score: 848; 48.2% identity (72.0% similar) in 282 aa overlap (3-279:51-323)

                                           10        20        30  
pF1KB8                             MEPGNYATLDGAKDIEGLLGAGGGRNLVAHSP
                                     ::.  ..::   . .   :.  :.:. : :
CCDS88 DSAAESGIGGGGGGGGGGTGGAGGGCSGASPGKAPSMDG---LGSSCPASHCRDLLPH-P
               30        40        50           60        70       

             40        50        60        70        80         90 
pF1KB8 LTSHPAAPTLMPAVNYAPLDLPGSAEPPKQCHPCPGVPQGTSPAPVPYGY-FGGGYYSCR
       . ..: ::   :  . .  :.: . :  .:: : : .:  .: : . ::: :::.::.::
CCDS88 VLGRPPAPLGAPQ-GAVYTDIP-APEAARQCAP-PPAPPTSSSATLGYGYPFGGSYYGCR
         80         90        100        110       120       130   

                100       110        120       130       140       
pF1KB8 VSRS---SLKPCAQAATLAAYPAETPT-AGEEYPSRPTEFAFYPGYPGTYQPMASYLDVS
       .:..   . ::::       ::  . .  :..  ::  ::::::.. ..:: : .:::::
CCDS88 LSHNVNLQQKPCAYHPG-DKYPEPSGALPGDDLSSRAKEFAFYPSFASSYQAMPGYLDVS
           140       150        160       170       180       190  

       150       160       170       180       190       200       
pF1KB8 VVQTLGAPGEPRHDSLLPVDSYQSWALAGGWNSQMCCQGEQNPPGPFWKAAFADSSGQHP
       ::  ...  :::::.:.::..:: :::..::.::. :. ::.  . .::. : :    .:
CCDS88 VVPGISGHPEPRHDALIPVEGYQHWALSNGWDSQVYCSKEQSQSAHLWKSPFPDVVPLQP
            200       210       220       230       240       250  

       210       220       230       240       250       260       
pF1KB8 PDACAFRRGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNR
        .. ..:::::::.::.: ::.:::.::::.:::::.:::.:::.:.:::::.:::::::
CCDS88 -EVSSYRRGRKKRVPYTKVQLKELEKEYAASKFITKEKRRRISATTNLSERQVTIWFQNR
             260       270       280       290       300       310 

       270       280      
pF1KB8 RVKEKKVLAKVKNSATP  
       :::::::..: :       
CCDS88 RVKEKKVVSKSKAPHLHST
             320       330

>>CCDS5412.1 HOXA13 gene_id:3209|Hs108|chr7               (388 aa)
 initn: 868 init1: 457 opt: 714  Z-score: 495.9  bits: 100.1 E(32554): 2.7e-21
Smith-Waterman score: 871; 57.3% identity (75.2% similar) in 246 aa overlap (54-282:144-388)

            30        40        50        60        70         80  
pF1KB8 GRNLVAHSPLTSHPAAPTLMPAVNYAPLDLPGSAEPPKQCHPCPGVPQGTS-PAPVPYGY
                                     :..::  ::: :: .. :..: :: .::::
CCDS54 PSAAAAAAAAAAAAAAAAAASSSGGPGPAGPAGAEAAKQCSPCSAAAQSSSGPAALPYGY
           120       130       140       150       160       170   

             90          100       110              120       130  
pF1KB8 FGGGYYSC-RVSR--SSLKPCAQAATLAAYPAETP----TAG---EEYPSRPTEFAFY-P
       ::.::: : :..   ...: ::: :. ::  : .     :::   ::. ::  :::::  
CCDS54 FGSGYYPCARMGPHPNAIKSCAQPASAAAAAAFADKYMDTAGPAAEEFSSRAKEFAFYHQ
           180       190       200       210       220       230   

                 140       150       160        170       180      
pF1KB8 GYP-GTY---QPMASYLDVSVVQTLGAPGEPRHDSL-LPVDSYQSWALAGGWNSQMCCQG
       ::  : :   ::: .:::. ::  ::.::: ::. : ::..::: ::: .:::.:: :  
CCDS54 GYAAGPYHHHQPMPGYLDMPVVPGLGGPGESRHEPLGLPMESYQPWALPNGWNGQMYCPK
           240       250       260       270       280       290   

        190       200       210       220       230       240      
pF1KB8 EQNPPGPFWKAAFADSSGQHPPDACAFRRGRKKRIPYSKGQLRELEREYAANKFITKDKR
       ::  :  .::... :  . :: :: ..:::::::.::.: ::.:::::::.:::::::::
CCDS54 EQAQPPHLWKSTLPDVVS-HPSDASSYRRGRKKRVPYTKVQLKELEREYATNKFITKDKR
           300       310        320       330       340       350  

        250       260       270       280    
pF1KB8 RKISAATSLSERQITIWFQNRRVKEKKVLAKVKNSATP
       :.:::.:.:::::.::::::::::::::. :.:...  
CCDS54 RRISATTNLSERQVTIWFQNRRVKEKKVINKLKTTS  
            360       370       380          

>>CCDS2264.2 HOXD13 gene_id:3239|Hs108|chr2               (343 aa)
 initn: 740 init1: 568 opt: 669  Z-score: 466.5  bits: 94.5 E(32554): 1.1e-19
Smith-Waterman score: 749; 47.8% identity (74.1% similar) in 247 aa overlap (57-283:101-343)

         30        40        50        60         70          80   
pF1KB8 LVAHSPLTSHPAAPTLMPAVNYAPLDLPGSAEPPKQCH-PCPGVPQGTSP-AP-VPYGY-
                                     : : :.:  : :..  .. : :: . ::: 
CCDS22 ASGFAYPGTSERTGSSSSSSSSAVVAARPEAPPAKECPAPTPAAAAAAPPSAPALGYGYH
               80        90       100       110       120       130

             90             100       110                 120      
pF1KB8 FGGGYYSCRVS------RSSLKPCAQAATLAAYPAE----------TPTAGEEYPSRPTE
       ::.::::::.:      ...::   .: .:...:.:          . . ..: :.:  :
CCDS22 FGNGYYSCRMSHGVGLQQNALKSSPHA-SLGGFPVEKYMDVSGLASSSVPANEVPARAKE
              140       150        160       170       180         

        130       140       150       160       170       180      
pF1KB8 FAFYPGYPGTYQPMASYLDVSVVQTLGAPGEPRHDSLLPVDSYQSWALAGGWNSQMCCQG
        .:: :: . :: . .:.:  .:.:.:. :::::.. . ...::::.::.:::::. :  
CCDS22 VSFYQGYTSPYQHVPGYID--MVSTFGS-GEPRHEAYISMEGYQSWTLANGWNSQVYCTK
     190       200         210        220       230       240      

        190       200       210       220       230       240      
pF1KB8 EQNPPGPFWKAAFADSSGQHPPDACAFRRGRKKRIPYSKGQLRELEREYAANKFITKDKR
       .:   . :::..:  . . . :: :..:::::::.::.: ::.::: ::: ::::.::::
CCDS22 DQPQGSHFWKSSFPGDVALNQPDMCVYRRGRKKRVPYTKLQLKELENEYAINKFINKDKR
        250       260       270       280       290       300      

        250       260       270       280    
pF1KB8 RKISAATSLSERQITIWFQNRRVKEKKVLAKVKNSATP
       :.:::::.:::::.::::::::::.::...:.:.... 
CCDS22 RRISAATNLSERQVTIWFQNRRVKDKKIVSKLKDTVS 
        310       320       330       340    




284 residues in 1 query   sequences
18511270 residues in 32554 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 16:34:32 2016 done: Fri Nov  4 16:34:33 2016
 Total Scan time:  2.760 Total Display time: -0.010

Function used was FASTA [36.3.4 Apr, 2011]