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: pF1KB7934, 215 aa
  1>>>pF1KB7934 215 - 215 aa - 215 aa
Library: human.CCDS.faa
  18511270 residues in 32554 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 8.9673+/-0.000916; mu= -0.9301+/- 0.055
 mean_var=282.1688+/-55.887, 0's: 0 Z-trim(114.7): 47  B-trim: 0 in 0/53
 Lambda= 0.076352
 statistics sampled from 15246 (15280) to 15246 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.785), E-opt: 0.2 (0.469), width:  16
 Scan time:  1.620

The best scores are:                                      opt bits E(32554)
CCDS9335.1 HMGB1 gene_id:3146|Hs108|chr13          ( 215) 1459 172.9 1.3e-43
CCDS3816.1 HMGB2 gene_id:3148|Hs108|chr4           ( 209) 1182 142.4   2e-34
CCDS2477.1 SP100 gene_id:6672|Hs108|chr2           ( 879) 1048 128.3 1.5e-29
CCDS35428.1 HMGB3 gene_id:3149|Hs108|chrX          ( 200) 1021 124.7 4.2e-29
CCDS30668.1 HMGB4 gene_id:127540|Hs108|chr1        ( 186)  513 68.7 2.8e-12


>>CCDS9335.1 HMGB1 gene_id:3146|Hs108|chr13               (215 aa)
 initn: 1459 init1: 1459 opt: 1459  Z-score: 896.3  bits: 172.9 E(32554): 1.3e-43
Smith-Waterman score: 1459; 100.0% identity (100.0% similar) in 215 aa overlap (1-215:1-215)

               10        20        30        40        50        60
pF1KB7 MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS93 MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKF
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB7 EDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS93 EDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGL
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB7 SIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAEK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
CCDS93 SIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAEK
              130       140       150       160       170       180

              190       200       210     
pF1KB7 SKKKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE
       :::::::::::::::::::::::::::::::::::
CCDS93 SKKKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE
              190       200       210     

>>CCDS3816.1 HMGB2 gene_id:3148|Hs108|chr4                (209 aa)
 initn: 1182 init1: 1182 opt: 1182  Z-score: 731.6  bits: 142.4 E(32554): 2e-34
Smith-Waterman score: 1182; 81.3% identity (94.3% similar) in 209 aa overlap (1-209:1-209)

               10        20        30        40        50        60
pF1KB7 MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKF
       ::::::.::::::::::::::::::::::::::.::::.::::::::::::::::::.::
CCDS38 MGKGDPNKPRGKMSSYAFFVQTCREEHKKKHPDSSVNFAEFSKKCSERWKTMSAKEKSKF
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB7 EDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGL
       :::::.:::::.::::.:.::::. : : :::::::::::::::::::.:::::.:::::
CCDS38 EDMAKSDKARYDREMKNYVPPKGDKKGKKKDPNAPKRPPSAFFLFCSEHRPKIKSEHPGL
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB7 SIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAEK
       ::::.::::::::.. .: ::::::.::::::::::::::::::::: .:.:::  .   
CCDS38 SIGDTAKKLGEMWSEQSAKDKQPYEQKAAKLKEKYEKDIAAYRAKGKSEAGKKGPGRPTG
              130       140       150       160       170       180

              190       200       210     
pF1KB7 SKKKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE
       ::::.: :..::.::.:.:.:.:::::::      
CCDS38 SKKKNEPEDEEEEEEEEDEDEEEEDEDEE      
              190       200               

>>CCDS2477.1 SP100 gene_id:6672|Hs108|chr2                (879 aa)
 initn: 1273 init1: 1037 opt: 1048  Z-score: 644.2  bits: 128.3 E(32554): 1.5e-29
Smith-Waterman score: 1048; 81.3% identity (89.9% similar) in 198 aa overlap (7-204:682-878)

                                       10        20        30      
pF1KB7                         MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASV
                                     .: :   :    .:. : ::::::.:::::
CCDS24 SKNWKLSIRCGGYTLKVLMENKFLPEPPSTRKKRILESHNNTLVDPC-EEHKKKNPDASV
             660       670       680       690        700       710

         40        50        60        70        80        90      
pF1KB7 NFSEFSKKCSERWKTMSAKEKGKFEDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPK
       .:::: ::::: :::. ::::::::::::::::.:::::::::::::: :::::::::::
CCDS24 KFSEFLKKCSETWKTIFAKEKGKFEDMAKADKAHYEREMKTYIPPKGEKKKKFKDPNAPK
              720       730       740       750       760       770

        100       110       120       130       140       150      
pF1KB7 RPPSAFFLFCSEYRPKIKGEHPGLSIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYE
       ::: :::::::::::::::::::::: ::.:::. ::::::: ::: ::::::::::::.
CCDS24 RPPLAFFLFCSEYRPKIKGEHPGLSIDDVVKKLAGMWNNTAAADKQFYEKKAAKLKEKYK
              780       790       800       810       820       830

        160       170       180       190       200       210     
pF1KB7 KDIAAYRAKGKPDAAKKGVVKAEKSKKKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE
       ::::::::::::..::: ::::::::::::::::::::..::.:::..           
CCDS24 KDIAAYRAKGKPNSAKKRVVKAEKSKKKKEEEEDEEDEQEEENEEDDDK          
              840       850       860       870                   

>>CCDS35428.1 HMGB3 gene_id:3149|Hs108|chrX               (200 aa)
 initn: 1247 init1: 536 opt: 1021  Z-score: 636.0  bits: 124.7 E(32554): 4.2e-29
Smith-Waterman score: 1021; 74.3% identity (88.8% similar) in 206 aa overlap (1-206:1-200)

               10        20        30        40        50        60
pF1KB7 MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKF
       :.:::::::.::::.:::::::::::::::.:.. :::.::::::::::::::.:::.::
CCDS35 MAKGDPKKPKGKMSAYAFFVQTCREEHKKKNPEVPVNFAEFSKKCSERWKTMSGKEKSKF
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB7 EDMAKADKARYEREMKTYIPPKGETKKKFKDPNAPKRPPSAFFLFCSEYRPKIKGEHPGL
       ..::::::.::.:::: : : ::  :::  ::::::::::.:::::::.:::::. .::.
CCDS35 DEMAKADKVRYDREMKDYGPAKGGKKKK--DPNAPKRPPSGFFLFCSEFRPKIKSTNPGI
               70        80          90       100       110        

              130       140       150       160       170       180
pF1KB7 SIGDVAKKLGEMWNNTAADDKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKAEK
       :::::::::::::::   ..::::  ::::::::::::.: :..::: :.:: : .:. .
CCDS35 SIGDVAKKLGEMWNNLNDSEKQPYITKAAKLKEKYEKDVADYKSKGKFDGAK-GPAKVAR
      120       130       140       150       160       170        

              190       200       210     
pF1KB7 SKKKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE
          :: ::::::.::.:::::.::::         
CCDS35 ---KKVEEEDEEEEEEEEEEEEEEDE         
          180       190       200         

>>CCDS30668.1 HMGB4 gene_id:127540|Hs108|chr1             (186 aa)
 initn: 508 init1: 279 opt: 513  Z-score: 333.9  bits: 68.7 E(32554): 2.8e-12
Smith-Waterman score: 513; 42.8% identity (76.5% similar) in 187 aa overlap (1-185:1-181)

               10        20        30        40        50        60
pF1KB7 MGKGDPKKPRGKMSSYAFFVQTCREEHKKKHPDASVNFSEFSKKCSERWKTMSAKEKGKF
       :::    ::....:::. :. . :.. :...:.. :.:.:::.::::.:...: .::.:.
CCDS30 MGKEIQLKPKANVSSYVHFLLNYRNKFKEQQPNTYVGFKEFSRKCSEKWRSISKHEKAKY
               10        20        30        40        50        60

               70        80        90        100       110         
pF1KB7 EDMAKADKARYEREMKTYIPPKGETKKKFK-DPNAPKRPPSAFFLFCSEYRPKIKGEHPG
       : .:: :::::..:: .:.   :. ::. : ::. :.::::.:.:::...  ..: :.:.
CCDS30 EALAKLDKARYQEEMMNYV---GKRKKRRKRDPQEPRRPPSSFLLFCQDHYAQLKRENPN
               70           80        90       100       110       

     120       130        140       150       160       170        
pF1KB7 LSIGDVAKKLGEMWNNTAAD-DKQPYEKKAAKLKEKYEKDIAAYRAKGKPDAAKKGVVKA
        :. .:::  :.::. ::.: .:.:::...: :. :: ...  :: .   .: ::  ..:
CCDS30 WSVVQVAKATGKMWS-TATDLEKHPYEQRVALLRAKYFEELELYRKQC--NARKKYRMSA
       120       130        140       150       160         170    

      180       190       200       210     
pF1KB7 EKSKKKKEEEEDEEDEEDEEEEEDEEDEDEEEDDDDE
       ..  . :                              
CCDS30 RNRCRGKRVRQS                         
          180                               




215 residues in 1 query   sequences
18511270 residues in 32554 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sat Nov  5 10:12:24 2016 done: Sat Nov  5 10:12:24 2016
 Total Scan time:  1.620 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]