# /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa
FASTA searches a protein or DNA sequence data bank
 version 35.03 Feb. 18, 2008
Please cite:
 W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: NC_002127.faa
  1>>>gi|10955263|ref|NP_052604.1| plasmid mobilization [Escherichia coli O157:H7 s 107 aa - 107 aa
Library: NC_009649.faa   45119 residues in   180 sequences

  45119 residues in   180 sequences
Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 6.1549+/-0.00908; mu= -2.2550+/- 0.463
 mean_var=53.4246+/-12.058, 0's: 0 Z-trim: 0  B-trim: 0 in 0/33
 Lambda= 0.175470
Algorithm: FASTA (3.5 Sept 2006) [optimized]
Parameters: BL50 matrix (15:-5) ktup: 2
 join: 36, opt: 24, open/ext: -10/-2, width:  16
 Scan time:  0.030

The best scores are:                                      opt bits E(180)
gi|152973457|ref|YP_001338508.1| ATPase with chape ( 931)   71 25.3    0.43
gi|152973588|ref|YP_001338639.1| F pilus assembly  ( 459)   63 23.4    0.81

>>>gi|10955263|ref|NP_052604.1|, 107 aa vs NC_009649.faa library
; pg_name: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35
; pg_ver: 35.03
; pg_argv: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa
; pg_name: FASTA
; pg_ver: 3.5 Sept 2006
; pg_matrix: BL50 (15:-5)
; pg_open-ext: -10 -2
; pg_ktup: 2
; pg_optcut: 24
; pg_cgap: 36
; mp_extrap: 60000 500
; mp_stats: (shuffled [500]) Expectation_n fit: rho(ln(x))= 6.1549+/-0.00908; mu= -2.2550+/- 0.463  mean_var=53.4246+/-12.058, 0's: 0 Z-trim: 0  B-trim: 0 in 0/33  Lambda= 0.175470
; mp_KS: -0.0000 (N=1069612839) at  20
; mp_Algorithm: FASTA (3.5 Sept 2006) [optimized]
; mp_Parameters: BL50 matrix (15:-5) ktup: 2  join: 36, opt: 24, open/ext: -10/-2, width:  16
>>gi|152973457|ref|YP_001338508.1| ATPase with chaperone activity, ATP-binding subunit [Klebsiella pneumoniae subsp. pneumoniae MGH 78578]
; fa_frame: f
; fa_initn:  65
; fa_init1:  43
; fa_opt:  71
; fa_z-score: 92.7
; fa_bits: 25.3
; fa_expect:   0.43
; sw_score: 71
; sw_ident: 0.250
; sw_sim: 0.574
; sw_overlap: 108
>gi|10955263| ..
; sq_len: 107
; sq_offset: 1
; sq_type: p
; al_start: 5
; al_stop: 103
; al_display_start: 1
--------------------------MTKRSGSNT-RRRAISRPVRLTAE
ED---QEIRKRAAECGKTVSGFLRAAALGKKVNSLTDDRVLKEVM-----
RLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRLMAD
>gi|152973457|ref|YP_001338508.1| ..
; sq_len: 931
; sq_offset: 1
; sq_type: p
; al_start: 96
; al_stop: 195
; al_display_start: 66
SDFFRIGDDATPVAADTDDVVDASFGEPAAAGSGAPRRRGSGLASRISEQ
SEALLQEAAKHAAEFGRS------EVDTEHLLLALADSDVVKTILGQFKI
KVDDLKRQIESEAKR-GDKPF-EGEIGVSPRVKDALSRAFVASNELGHSY
VGPEHFLIGLAEEGEGLAANLLRRYGLTPQ
>>gi|152973588|ref|YP_001338639.1| F pilus assembly protein [Klebsiella pneumoniae subsp. pneumoniae MGH 78578]
; fa_frame: f
; fa_initn:  33
; fa_init1:  33
; fa_opt:  63
; fa_z-score: 87.7
; fa_bits: 23.4
; fa_expect:   0.81
; sw_score: 63
; sw_ident: 0.266
; sw_sim: 0.656
; sw_overlap: 64
>gi|10955263| ..
; sq_len: 107
; sq_offset: 1
; sq_type: p
; al_start: 32
; al_stop: 94
; al_display_start: 2
TKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRAAALGKK
VNSLTDDRVLKEV-MRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRAL
LSRLMAD
>gi|152973588|ref|YP_001338639.1| ..
; sq_len: 459
; sq_offset: 1
; sq_type: p
; al_start: 191
; al_stop: 248
; al_display_start: 161
VGGLFPRTQVAQQKVCQDIAGESNIFSDWAASRQGCTVGG--KMDSVQDK
ASDKDKERVMKNINIMWNALSKNRLFDG----NKELKEFIMTLTGTLIFG
ENSEITPLPARTTDQDLIRAMMEGGTAKIYHCNDSDKCLKVVADATVTIT
SNKALKSQISALLSSIQNKAVADEKLTDQE
  2>>>gi|10955264|ref|NP_052605.1| hypothetical protein pOSAK1_02 [Escherichia coli O157:H7 s 126 aa - 126 aa
Library: NC_009649.faa   45119 residues in   180 sequences

  45119 residues in   180 sequences
Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.7842+/-0.0102; mu= 9.7189+/- 0.536
 mean_var=54.8927+/-12.828, 0's: 0 Z-trim: 0  B-trim: 0 in 0/33
 Lambda= 0.173108
Algorithm: FASTA (3.5 Sept 2006) [optimized]
Parameters: BL50 matrix (15:-5) ktup: 2
 join: 36, opt: 24, open/ext: -10/-2, width:  16
 Scan time:  0.030

The best scores are:                                      opt bits E(180)
gi|152973462|ref|YP_001338513.1| hypothetical prot ( 101)   58 22.2    0.49

>>>gi|10955264|ref|NP_052605.1|, 126 aa vs NC_009649.faa library
; pg_name: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35
; pg_ver: 35.03
; pg_argv: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa
; pg_name: FASTA
; pg_ver: 3.5 Sept 2006
; pg_matrix: BL50 (15:-5)
; pg_open-ext: -10 -2
; pg_ktup: 2
; pg_optcut: 24
; pg_cgap: 36
; mp_extrap: 60000 500
; mp_stats: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.7842+/-0.0102; mu= 9.7189+/- 0.536  mean_var=54.8927+/-12.828, 0's: 0 Z-trim: 0  B-trim: 0 in 0/33  Lambda= 0.173108
; mp_KS: -0.0000 (N=1067190620) at  20
; mp_Algorithm: FASTA (3.5 Sept 2006) [optimized]
; mp_Parameters: BL50 matrix (15:-5) ktup: 2  join: 36, opt: 24, open/ext: -10/-2, width:  16
>>gi|152973462|ref|YP_001338513.1| hypothetical protein KPN_pKPN3p05904 [Klebsiella pneumoniae subsp. pneumoniae MGH 78578]
; fa_frame: f
; fa_initn:  50
; fa_init1:  50
; fa_opt:  58
; fa_z-score: 91.6
; fa_bits: 22.2
; fa_expect:   0.49
; sw_score: 58
; sw_ident: 0.289
; sw_sim: 0.632
; sw_overlap: 38
>gi|10955264| ..
; sq_len: 126
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 38
; al_display_start: 1
------------------------------MKKDKKYQIEAIKNKDKTLF
IVYATDIYSPSEFFSKIESDLKKKKSKGDVFFDLIIPNGGKKDRYVYTSF
NGEKFSSYTLNKVTKTDEYN
>gi|152973462|ref|YP_001338513.1| ..
; sq_len: 101
; sq_offset: 1
; sq_type: p
; al_start: 44
; al_stop: 81
; al_display_start: 14
DALLGEIQRLRKQVHQLQLERDILTKANELIKKDLGVSFLKLKNREKTLI
VDALKKKYPVAELLSVLQLARSCYFYQNVCTISMRKYA
  3>>>gi|10955265|ref|NP_052606.1| hypothetical protein pOSAK1_03 [Escherichia coli O157:H7 s 346 aa - 346 aa
Library: NC_009649.faa   45119 residues in   180 sequences

  45119 residues in   180 sequences
Statistics: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.6839+/- 0.011; mu= 15.3165+/- 0.586
 mean_var=61.2646+/-13.548, 0's: 0 Z-trim: 0  B-trim: 0 in 0/33
 Lambda= 0.163859
Algorithm: FASTA (3.5 Sept 2006) [optimized]
Parameters: BL50 matrix (15:-5) ktup: 2
 join: 37, opt: 25, open/ext: -10/-2, width:  16
 Scan time:  0.050

The best scores are:                                      opt bits E(180)
gi|152973545|ref|YP_001338596.1| putative plasmid  ( 242)   70 25.3    0.36

>>>gi|10955265|ref|NP_052606.1|, 346 aa vs NC_009649.faa library
; pg_name: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35
; pg_ver: 35.03
; pg_argv: /home/username/Downloads/FASTA/fasta-35.3.6/fasta35 -Q -H -E 1 -m 10 NC_002127.faa NC_009649.faa
; pg_name: FASTA
; pg_ver: 3.5 Sept 2006
; pg_matrix: BL50 (15:-5)
; pg_open-ext: -10 -2
; pg_ktup: 2
; pg_optcut: 25
; pg_cgap: 37
; mp_extrap: 60000 500
; mp_stats: (shuffled [500]) Expectation_n fit: rho(ln(x))= 3.6839+/- 0.011; mu= 15.3165+/- 0.586  mean_var=61.2646+/-13.548, 0's: 0 Z-trim: 0  B-trim: 0 in 0/33  Lambda= 0.163859
; mp_KS: -0.0000 (N=1072013992) at  20
; mp_Algorithm: FASTA (3.5 Sept 2006) [optimized]
; mp_Parameters: BL50 matrix (15:-5) ktup: 2  join: 37, opt: 25, open/ext: -10/-2, width:  16
>>gi|152973545|ref|YP_001338596.1| putative plasmid SOS inhibition protein A [Klebsiella pneumoniae subsp. pneumoniae MGH 78578]
; fa_frame: f
; fa_initn:  52
; fa_init1:  52
; fa_opt:  70
; fa_z-score: 94.0
; fa_bits: 25.3
; fa_expect:   0.36
; sw_score: 70
; sw_ident: 0.279
; sw_sim: 0.651
; sw_overlap: 43
>gi|10955265| ..
; sq_len: 346
; sq_offset: 1
; sq_type: p
; al_start: 197
; al_stop: 238
; al_display_start: 167
DFMCSILNMKEIVEQKNKEFNVDIKKETIESELHSKLPKSIDKIHEDIKK
QLSC-SLIMKKIDVEMEDYSTYCFSALRAIEGFIYQILNDVCNPSSSKNL
GEYFTENKPKYIIREIHQET
>gi|152973545|ref|YP_001338596.1| ..
; sq_len: 242
; sq_offset: 1
; sq_type: p
; al_start: 52
; al_stop: 94
; al_display_start: 22
IMTVEEARQRGARLPSMPHVRTFLRLLTGCSRINSDVARRIPGIHRDPKD
RLSSLKQVEEALDMLISSHGEYCPLPLTMDVQAENFPEVLHTRTVRRLKR
QDFAFTRKMRREARQVEQSW
>>><<<


579 residues in 3 query   sequences
45119 residues in 180 library sequences
 Scomplib [35.03]
 start: Tue May 20 15:20:03 2008 done: Tue May 20 15:20:03 2008
 Total Scan time:  0.110 Total Display time:  0.010

Function used was FASTA [version 35.03 Feb. 18, 2008]
