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: pF1KB8953, 328 aa
  1>>>pF1KB8953 328 - 328 aa - 328 aa
Library: human.CCDS.faa
  18511270 residues in 32554 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 8.9747+/-0.00088; mu= 2.8796+/- 0.054
 mean_var=288.1422+/-59.053, 0's: 0 Z-trim(116.4): 122  B-trim: 0 in 0/53
 Lambda= 0.075556
 statistics sampled from 16840 (16969) to 16840 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.808), E-opt: 0.2 (0.521), width:  16
 Scan time:  3.140

The best scores are:                                      opt bits E(32554)
CCDS2271.1 HOXD1 gene_id:3231|Hs108|chr2           ( 328) 2225 255.0 5.9e-68
CCDS32675.1 HOXB1 gene_id:3211|Hs108|chr17         ( 301)  533 70.6 1.8e-12
CCDS5401.1 HOXA1 gene_id:3198|Hs108|chr7           ( 335)  526 69.9 3.4e-12


>>CCDS2271.1 HOXD1 gene_id:3231|Hs108|chr2                (328 aa)
 initn: 2225 init1: 2225 opt: 2225  Z-score: 1333.5  bits: 255.0 E(32554): 5.9e-68
Smith-Waterman score: 2225; 99.7% identity (100.0% similar) in 328 aa overlap (1-328:1-328)

               10        20        30        40        50        60
pF1KB8 MSSYLEYVSCSSSGGVGGDVLSLAPKFCRSDARPVALQPAFPLGNGDGAFVSCLPLAAAR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS22 MSSYLEYVSCSSSGGVGGDVLSLAPKFCRSDARPVALQPAFPLGNGDGAFVSCLPLAAAR
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB8 PSPSPPAAPARPSVPPPAAPQYAQCTLEGAYEPGAAPAAAAGGADYGFLGSGPAYDFPGV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS22 PSPSPPAAPARPSVPPPAAPQYAQCTLEGAYEPGAAPAAAAGGADYGFLGSGPAYDFPGV
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB8 LGRAADDGGSHVHYATSAVFSGGGSFLLSGQVDYAAFGEPGPFPACLKASADGHPGAFQT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS22 LGRAADDGGSHVHYATSAVFSGGGSFLLSGQVDYAAFGEPGPFPACLKASADGHPGAFQT
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KB8 ASPAPGTYPKSVSPASGLPAAFSTFEWMKVKRNASKKGKLAEYGAASPSSAIRTNFSTKQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS22 ASPAPGTYPKSVSPASGLPAAFSTFEWMKVKRNASKKGKLAEYGAASPSSAIRTNFSTKQ
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KB8 LTELEKEFHFNKYLTRARRIEIANCLHLNDTQVKIWFQNRRMKQKKREREGLLATTIPVA
       :::::::::::::::::::::::::::::::::::::::::::::::::::::::.::::
CCDS22 LTELEKEFHFNKYLTRARRIEIANCLHLNDTQVKIWFQNRRMKQKKREREGLLATAIPVA
              250       260       270       280       290       300

              310       320        
pF1KB8 PLQLPLSGTTPTKFIKNPGSPSQSQEPS
       ::::::::::::::::::::::::::::
CCDS22 PLQLPLSGTTPTKFIKNPGSPSQSQEPS
              310       320        

>>CCDS32675.1 HOXB1 gene_id:3211|Hs108|chr17              (301 aa)
 initn: 431 init1: 344 opt: 533  Z-score: 337.2  bits: 70.6 E(32554): 1.8e-12
Smith-Waterman score: 555; 39.9% identity (58.3% similar) in 333 aa overlap (1-322:6-297)

                    10        20        30        40        50     
pF1KB8      MSSYLEYVSCSSSGGVGGDVLSLAPKFCRSDARPVALQPAFPLGNGDGAFVSCLP
            :.:.:::  :.  :  . .. :   .:  :.:. :  . :     : :     . 
CCDS32 MDYNRMNSFLEYPLCNR-GPSAYSAHSAPTSFPPSSAQAVD-SYASEGRYGGGLSSPAFQ
               10         20        30        40         50        

          60        70        80        90       100       110     
pF1KB8 LAAARPSPSPPAAPARPSVPPPAAPQYAQCTLEGAYEPGAAPAAAAGGADYGFLGSGPAY
         .. :. .::.. . :   : .::.            : :::: .   .::     :. 
CCDS32 QNSGYPAQQPPSTLGVPF--PSSAPS------------GYAPAACS--PSYG-----PSQ
       60        70          80                    90              

         120       130       140       150        160       170    
pF1KB8 DFPGVLGRAADDGGSHVHYATSAVFSGGGSFLLSGQVDYAAFGE-PGPFPACLKASADGH
        .:  ::..  ::: . : .. ..  ::   : .:   :.: :  :::.:         :
CCDS32 YYP--LGQSEGDGG-YFHPSSYGAQLGG---LSDG---YGAGGAGPGPYP-------PQH
       100          110       120             130              140 

            180       190            200         210       220     
pF1KB8 P--GAFQTASPAPGTYPKSVS-----PASGLPAAFS--TFEWMKVKRNASKKGKLAEYGA
       :  :  :::: ::. :   .:     :  . : . .  ::.:::::::  : .:..: : 
CCDS32 PPYGNEQTASFAPA-YADLLSEDKETPCPSEPNTPTARTFDWMKVKRNPPKTAKVSEPGL
             150        160       170       180       190       200

         230       240       250       260       270       280     
pF1KB8 ASPSSAIRTNFSTKQLTELEKEFHFNKYLTRARRIEIANCLHLNDTQVKIWFQNRRMKQK
       .:::. .::::.:.:::::::::::::::.::::.:::  :.::.:::::::::::::::
CCDS32 GSPSG-LRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQK
               210       220       230       240       250         

         290        300       310       320        
pF1KB8 KRERE-GLLATTIPVAPLQLPLSGTTPTKFIKNPGSPSQSQEPS
       ::::: : .  . :  : .   ...  .   .  .:::      
CCDS32 KREREEGRVPPAPPGCPKEAAGDASDQSTCTSPEASPSSVTS  
     260       270       280       290       300   

>>CCDS5401.1 HOXA1 gene_id:3198|Hs108|chr7                (335 aa)
 initn: 578 init1: 500 opt: 526  Z-score: 332.5  bits: 69.9 E(32554): 3.4e-12
Smith-Waterman score: 536; 37.0% identity (58.7% similar) in 341 aa overlap (1-328:6-328)

                    10        20        30        40           50  
pF1KB8      MSSYLEYVSCSSSGGVGGDVLSLAPKFCRSDARPVALQPAFPLGN---GDGAFVS
            :.:.:::   ::     ::  . . .   :: : ...:     .:   ::  :. 
CCDS54 MDNARMNSFLEYPILSS-----GDSGTCSARAYPSDHRITTFQSCAVSANSCGGDDRFLV
               10             20        30        40        50     

             60        70        80        90       100       110  
pF1KB8 CLPLAAARPSPSPPAAPARPSVPPPAAPQYAQCTLEGAYEPGAAPAAAAGGADYGFLGSG
          .  . :         .:.   ::. : .     :    :.. . .. : .::  . .
CCDS54 GRGVQIGSPHHHHHHHHRHPQ---PATYQTS-----GNL--GVSYSHSSCGPSYGSQNFS
          60        70           80               90       100     

            120       130       140        150         160         
pF1KB8 PAYDFPGVLGRAADDGGSHVHYATSAVFSGG-GSFLLSGQVDYAAF--GEPGPFPACLKA
         :. : .:.. :: .:.. . :  ::.::. .: ... .  . ..  :  :  :  .. 
CCDS54 APYS-PYALNQEADVSGGYPQCAP-AVYSGNLSSPMVQHHHHHQGYAGGAVGS-PQYIHH
          110       120        130       140       150        160  

     170       180             190        200       210       220  
pF1KB8 SADGHPGAFQTA------SPAPGTYPKSV-SPASGLPAAFSTFEWMKVKRNASKKGKLAE
       :   .  ..  :      ::  ... ..  ::::   .  .::.:::::::  : ::..:
CCDS54 SYGQEHQSLALATYNNSLSPLHASHQEACRSPASETSSPAQTFDWMKVKRNPPKTGKVGE
            170       180       190       200       210       220  

            230       240       250       260       270       280  
pF1KB8 YGAASPSSAIRTNFSTKQLTELEKEFHFNKYLTRARRIEIANCLHLNDTQVKIWFQNRRM
       ::  .  .:.::::.::::::::::::::::::::::.:::  :.::.::::::::::::
CCDS54 YGYLGQPNAVRTNFTTKQLTELEKEFHFNKYLTRARRVEIAASLQLNETQVKIWFQNRRM
            230       240       250       260       270       280  

            290       300       310       320               
pF1KB8 KQKKREREGLLATTIPVAPLQLPLSGTTPTKFIKNPGSPSQSQEPS       
       ::::::.::::  .  . : .   .  .  :  ..:  :: ..  :       
CCDS54 KQKKREKEGLLPISPATPPGNDEKAEESSEKSSSSPCVPSPGSSTSDTLTTSH
            290       300       310       320       330     




328 residues in 1 query   sequences
18511270 residues in 32554 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 16:39:44 2016 done: Fri Nov  4 16:39:44 2016
 Total Scan time:  3.140 Total Display time:  0.000

Function used was FASTA [36.3.4 Apr, 2011]